Does not compile in release mode

[max-te]

The cmake command in netcdf-src with static feature fails for me on release builds.

Steps to reproduce (in an empty folder)

cargo init
cargo add netcdf --features static
cargo build # Succeeds
cargo build --release # Fails

Output:

   Compiling cc v1.0.96
   Compiling pkg-config v0.3.30
   Compiling vcpkg v0.2.15
   Compiling memchr v2.7.2
   Compiling regex-syntax v0.8.3
   Compiling autocfg v1.3.0
   Compiling cfg-if v1.0.0
   Compiling libc v0.2.154
   Compiling semver v1.0.22
   Compiling rawpointer v0.2.1
   Compiling netcdf v0.9.1
   Compiling bitflags v2.5.0
   Compiling libloading v0.7.4
   Compiling num-traits v0.2.19
   Compiling matrixmultiply v0.3.8
   Compiling aho-corasick v1.1.3
   Compiling netcdf-sys v0.6.0
   Compiling cmake v0.1.50
   Compiling libz-sys v1.1.16
   Compiling hdf5-src v0.8.1
   Compiling netcdf-src v0.3.3
   Compiling num-complex v0.4.5
   Compiling num-integer v0.1.46
   Compiling ndarray v0.15.6
   Compiling regex-automata v0.4.6
   Compiling regex v1.10.4
   Compiling hdf5-sys v0.8.1
error: failed to run custom build command for `netcdf-src v0.3.3`

Caused by:
  process didn't exit successfully: `/home/max/dev/bug/target/release/build/netcdf-src-133e7c1c090136f3/build-script-build` (exit status: 101)
  --- stdout
  cargo:rerun-if-changed=build.rs
  CMAKE_TOOLCHAIN_FILE_x86_64-unknown-linux-gnu = None
  CMAKE_TOOLCHAIN_FILE_x86_64_unknown_linux_gnu = None
  HOST_CMAKE_TOOLCHAIN_FILE = None
  CMAKE_TOOLCHAIN_FILE = None
  CMAKE_GENERATOR_x86_64-unknown-linux-gnu = None
  CMAKE_GENERATOR_x86_64_unknown_linux_gnu = None
  HOST_CMAKE_GENERATOR = None
  CMAKE_GENERATOR = None
  CMAKE_PREFIX_PATH_x86_64-unknown-linux-gnu = None
  CMAKE_PREFIX_PATH_x86_64_unknown_linux_gnu = None
  HOST_CMAKE_PREFIX_PATH = None
  CMAKE_PREFIX_PATH = None
  CMAKE_x86_64-unknown-linux-gnu = None
  CMAKE_x86_64_unknown_linux_gnu = None
  HOST_CMAKE = None
  CMAKE = None
  running: cd "/home/max/dev/bug/target/release/build/netcdf-src-e0c5a24fb58674c7/out/build" && CMAKE_PREFIX_PATH="" "cmake" "/home/max/.cargo/registry/src/index.crates.io-6f17d22bba15001f/netcdf-src-0.3.3/source" "-DBUILD_SHARED_LIBS=OFF" "-DNC_FIND_SHARED_LIBS=OFF" "-DBUILD_UTILITIES=OFF" "-DENABLE_EXAMPLES=OFF" "-DENABLE_DAP_REMOTE_TESTS=OFF" "-DENABLE_TESTS=OFF" "-DENABLE_EXTREME_NUMBERS=OFF" "-DENABLE_PARALLEL_TESTS=OFF" "-DENABLE_FILTER_TESTING=OFF" "-DENABLE_BASH_SCRIPT_TESTING=OFF" "-DENABLE_PLUGINS=OFF" "-DPLUGIN_INSTALL_DIR=OFF" "-DHDF5_VERSION=1.10.7" "-DHDF5_C_LIBRARY=hdf5" "-DHDF5_HL_LIBRARY=hdf5_hl" "-DHDF5_INCLUDE_DIR=/home/max/dev/bug/target/release/build/hdf5-src-614e7233f98d8695/out/include" "-DENABLE_NCZARR=OFF" "-DENABLE_DAP=OFF" "-DENABLE_BYTERANGE=OFF" "-DENABLE_DAP_REMOTE_TESTS=OFF" "-DZLIB_ROOT=/home/max/dev/bug/target/release/build/libz-sys-97b733af6dc36c2b/out/include/.." "-DCMAKE_INSTALL_PREFIX=/home/max/dev/bug/target/release/build/netcdf-src-e0c5a24fb58674c7/out" "-DCMAKE_C_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_C_COMPILER=/usr/bin/cc" "-DCMAKE_CXX_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_CXX_COMPILER=/usr/bin/c++" "-DCMAKE_ASM_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_ASM_COMPILER=/usr/bin/cc" "-DCMAKE_BUILD_TYPE=RelWithDebInfo"
  -- The C compiler identification is GNU 13.2.1
  -- The CXX compiler identification is GNU 13.2.1
  -- Detecting C compiler ABI info
  -- Detecting C compiler ABI info - done
  -- Check for working C compiler: /usr/bin/cc - skipped
  -- Detecting C compile features
  -- Detecting C compile features - done
  -- Detecting CXX compiler ABI info
  -- Detecting CXX compiler ABI info - done
  -- Check for working CXX compiler: /usr/bin/c++ - skipped
  -- Detecting CXX compile features
  -- Detecting CXX compile features - done
  -- Performing Test LIBTOOL_HAS_NO_UNDEFINED
  -- Performing Test LIBTOOL_HAS_NO_UNDEFINED - Success
  -- Performing Test CC_HAS_WCONVERSION
  -- Performing Test CC_HAS_WCONVERSION - Success
  -- Performing Test CC_HAS_SHORTEN_64_32
  -- Performing Test CC_HAS_SHORTEN_64_32 - Failed
  -- Using HDF5 C Library: hdf5
  -- Using HDF5 HL LIbrary: hdf5_hl
  -- Found HDF5 libraries version 1.10.7
  -- Performing Test CMAKE_HAVE_LIBC_PTHREAD
  -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
  -- Found Threads: TRUE
  -- Performing Test HAVE_HDF5_ZLIB
  -- Performing Test HAVE_HDF5_ZLIB - Success
  -- Found ZLIB: /home/max/dev/bug/target/release/build/libz-sys-97b733af6dc36c2b/out/lib/libz.a (found version "1.3.1")
  -- HDF5 has zlib.
  -- Performing Test USE_HDF5_SZIP
  -- Performing Test USE_HDF5_SZIP - Failed
  -- Looking for H5Pget_fapl_mpio in hdf5
  -- Looking for H5Pget_fapl_mpio in hdf5 - found
  -- Looking for H5Pset_all_coll_metadata_ops in hdf5
  -- Looking for H5Pset_all_coll_metadata_ops in hdf5 - found
  -- Looking for H5Dread_chunk in hdf5
  -- Looking for H5Dread_chunk in hdf5 - found
  -- Looking for H5Pset_fapl_ros3 in hdf5
  -- Looking for H5Pset_fapl_ros3 in hdf5 - not found
  -- Found CURL: /usr/lib/libcurl.so (found version "8.7.1")
  -- Performing Test HAVE_LIBCURL_766
  -- Performing Test HAVE_LIBCURL_766 - Success
  -- Found Math library: /usr/lib/libm.so
  -- Found Szip: headers at /usr/include, libraries at /usr/lib
  --    library is /usr/lib/libsz.so
  -- Found Bz2: headers at /usr/include, libraries at /usr/lib
  --    library is /usr/lib/libbz2.so
  -- Found Blosc: headers at /usr/include, libraries at /usr/lib
  --    library is /usr/lib/libblosc.so
  -- Found Zstd: headers at /usr/include, libraries at /usr/lib
  --    library is /usr/lib/libzstd.so
  -- Found LibXml2: /usr/lib/libxml2.so (found version "2.12.6")
  -- Found MPI_C: /usr/lib/libmpi.so (found version "3.1")
  -- Found MPI_CXX: /usr/lib/libmpi.so (found version "3.1")
  -- Found MPI: TRUE (found version "3.1")
  -- Enabling use of fill value when NC_ERANGE
  -- Enabling a more relaxed check for NC_EINVALCOORDS
  -- Looking for math.h
  -- Looking for math.h - found
  -- Looking for unistd.h
  -- Looking for unistd.h - found
  -- Looking for alloca.h
  -- Looking for alloca.h - found
  -- Looking for malloc.h
  -- Looking for malloc.h - found
  -- Looking for fcntl.h
  -- Looking for fcntl.h - found
  -- Looking for getopt.h
  -- Looking for getopt.h - found
  -- Looking for locale.h
  -- Looking for locale.h - found
  -- Looking for stdint.h
  -- Looking for stdint.h - found
  -- Looking for stdio.h
  -- Looking for stdio.h - found
  -- Looking for stdlib.h
  -- Looking for stdlib.h - found
  -- Looking for stdarg.h
  -- Looking for stdarg.h - found
  -- Looking for strings.h
  -- Looking for strings.h - found
  -- Looking for signal.h
  -- Looking for signal.h - found
  -- Looking for sys/param.h
  -- Looking for sys/param.h - found
  -- Looking for sys/stat.h
  -- Looking for sys/stat.h - found
  -- Looking for sys/time.h
  -- Looking for sys/time.h - found
  -- Looking for sys/types.h
  -- Looking for sys/types.h - found
  -- Looking for sys/mman.h
  -- Looking for sys/mman.h - found
  -- Looking for sys/resource.h
  -- Looking for sys/resource.h - found
  -- Looking for inttypes.h
  -- Looking for inttypes.h - found
  -- Looking for pstdint.h
  -- Looking for pstdint.h - not found
  -- Looking for endian.h
  -- Looking for endian.h - found
  -- Looking for BaseTsd.h
  -- Looking for BaseTsd.h - not found
  -- Looking for stddef.h
  -- Looking for stddef.h - found
  -- Looking for string.h
  -- Looking for string.h - found
  -- Looking for winsock2.h
  -- Looking for winsock2.h - not found
  -- Looking for ftw.h
  -- Looking for ftw.h - found
  -- Looking for libgen.h
  -- Looking for libgen.h - found
  -- Looking for execinfo.h
  -- Looking for execinfo.h - found
  -- Looking for dirent.h
  -- Looking for dirent.h - found
  -- Looking for time.h
  -- Looking for time.h - found
  -- Looking for dlfcn.h
  -- Looking for dlfcn.h - found
  -- Looking for isfinite
  -- Looking for isfinite - found
  -- Looking for isnan
  -- Looking for isnan - found
  -- Looking for isinf
  -- Looking for isinf - found
  -- Looking for st_blksize
  -- Looking for st_blksize - not found
  -- Looking for alloca
  -- Looking for alloca - found
  -- Looking for snprintf
  -- Looking for snprintf - found
  -- Check size of char
  -- Check size of char - done
  -- Check size of double
  -- Check size of double - done
  -- Check size of float
  -- Check size of float - done
  -- Check size of int
  -- Check size of int - done
  -- Check size of uint
  -- Check size of uint - done
  -- Check size of schar
  -- Check size of schar - failed
  -- Check size of long
  -- Check size of long - done
  -- Check size of long long
  -- Check size of long long - done
  -- Check size of unsigned long long
  -- Check size of unsigned long long - done
  -- Check size of off_t
  -- Check size of off_t - done
  -- Check size of off64_t
  -- Check size of off64_t - done
  -- Check size of short
  -- Check size of short - done
  -- Check size of ushort
  -- Check size of ushort - done
  -- Check size of _Bool
  -- Check size of _Bool - done
  -- Check size of size_t
  -- Check size of size_t - done
  -- Check size of ssize_t
  -- Check size of ssize_t - done
  -- Check size of ptrdiff_t
  -- Check size of ptrdiff_t - done
  -- Check size of uintptr_t
  -- Check size of uintptr_t - done
  -- Check size of __int64
  -- Check size of __int64 - failed
  -- Check size of int64_t
  -- Check size of int64_t - done
  -- Check size of uint64
  -- Check size of uint64 - failed
  -- Check size of unsigned char
  -- Check size of unsigned char - done
  -- Check size of unsigned short int
  -- Check size of unsigned short int - done
  -- Check size of unsigned int
  -- Check size of unsigned int - done
  -- Check size of long long
  -- Check size of long long - done
  -- Check size of unsigned long long
  -- Check size of unsigned long long - done
  -- Check size of uint64_t
  -- Check size of uint64_t - done
  -- Looking for fsync
  -- Looking for fsync - found
  -- Looking for strlcat
  -- Looking for strlcat - found
  -- Looking for strdup
  -- Looking for strdup - found
  -- Looking for strndup
  -- Looking for strndup - found
  -- Looking for strtoll
  -- Looking for strtoll - found
  -- Looking for strcasecmp
  -- Looking for strcasecmp - found
  -- Looking for strtoull
  -- Looking for strtoull - found
  -- Looking for mkstemp
  -- Looking for mkstemp - found
  -- Looking for mktemp
  -- Looking for mktemp - found
  -- Looking for random
  -- Looking for random - found
  -- Looking for gettimeofday
  -- Looking for gettimeofday - found
  -- Looking for MPI_Comm_f2c
  -- Looking for MPI_Comm_f2c - not found
  -- Looking for MPI_Info_f2c
  -- Looking for MPI_Info_f2c - not found
  -- Looking for memmove
  -- Looking for memmove - found
  -- Looking for getpagesize
  -- Looking for getpagesize - found
  -- Looking for sysconf
  -- Looking for sysconf - found
  -- Looking for getrlimit
  -- Looking for getrlimit - found
  -- Looking for _filelengthi64
  -- Looking for _filelengthi64 - not found
  -- Looking for mmap
  -- Looking for mmap - found
  -- Looking for mremap
  -- Looking for mremap - found
  -- Looking for fileno
  -- Looking for fileno - found
  -- Looking for clock_gettime
  -- Looking for clock_gettime - found
  -- Looking for struct timespec
  -- Looking for struct timespec - not found
  -- Looking for atexit
  -- Looking for atexit - found
  -- Performing Test HAVE_MAPANON
  -- Performing Test HAVE_MAPANON - Success
  -- Found m4: /usr/bin/m4
  -- Building Shared Libraries:     OFF
  -- Building netCDF-4:             ON
  -- Building DAP2 Support:         OFF
  -- Building DAP4 Support:         OFF
  -- Building Byte-range Support:   OFF
  -- Building Utilities:            OFF
  -- Using PnetCDF:       OFF
  -- Using Parallel IO:   ON
  -- Build Type:           RELWITHDEBINFO
  -- CMAKE_C_COMPILER:     /usr/bin/cc
  -- CMAKE_C_FLAGS:         -ffunction-sections -fdata-sections -fPIC -m64 -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64
  -- Linking against:      hdf5_hl;hdf5;/usr/lib/libm.so;/home/max/dev/bug/target/release/build/libz-sys-97b733af6dc36c2b/out/lib/libz.a;/usr/lib/libblosc.so;/usr/lib/libzstd.so;/usr/lib/libbz2.so;/usr/lib/libcurl.so;/usr/lib/libxml2.so
  -- # NetCDF C Configuration Summary
  ==============================

  # General
  -------
  NetCDF Version:               4.9.2
  Dispatch Version:       5
  Configured On:                2024-05-04T16:51:41 CEST
  Host System:          x86_64-Linux-6.5.7-273-tkg-linux-tkg-cfs-generic_v3
  Build Directory:      /home/max/dev/bug/target/release/build/netcdf-src-e0c5a24fb58674c7/out/build
  Install Prefix:         /home/max/dev/bug/target/release/build/netcdf-src-e0c5a24fb58674c7/out
  Plugin Install Prefix:  N.A.

  # Compiling Options
  -----------------
  C Compiler:           /usr/bin/cc
  CFLAGS:                        -ffunction-sections -fdata-sections -fPIC -m64 -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -O2 -g -DNDEBUG
  CPPFLAGS:
  LDFLAGS:
  AM_CFLAGS:
  AM_CPPFLAGS:
  AM_LDFLAGS:
  Shared Library:               no
  Static Library:               yes
  Extra libraries:      -lhdf5_hl -lhdf5 -lm -lz -lblosc -lzstd -lbz2 -lcurl -lxml2
  XML Parser:             libxml2

  # Features
  --------
  Benchmarks:           no
  NetCDF-2 API:         yes
  HDF4 Support:         no
  HDF5 Support:         yes
  NetCDF-4 API:         yes
  CDF5 Support:         yes
  NC-4 Parallel Support:        yes
  PnetCDF Support:      no

  DAP2 Support:         no
  DAP4 Support:         no
  Byte-Range Support:   no

  S3 Support:           no

  NCZarr Support:               no
  NCZarr Zip Support:     no

  Diskless Support:     yes
  MMap Support:         yes
  JNA Support:          no
  ERANGE Fill Support:  yes
  Relaxed Boundary Check:       yes

  Multi-Filter Support: yes
  Quantization:         yes
  Logging:              no
  SZIP Write Support:     yes
  Standard Filters:       deflate szip blosc zstd bz2
  ZSTD Support:           yes
  Parallel Filters:       yes

  -- Configuring incomplete, errors occurred!

  --- stderr
  CMake Warning (dev) at CMakeLists.txt:54 (exec_program):
    Policy CMP0153 is not set: The exec_program command should not be called.
    Run "cmake --help-policy CMP0153" for policy details.  Use the cmake_policy
    command to set the policy and suppress this warning.

    Use execute_process() instead.
  Call Stack (most recent call first):
    CMakeLists.txt:56 (getuname)
  This warning is for project developers.  Use -Wno-dev to suppress it.

  CMake Warning (dev) at CMakeLists.txt:54 (exec_program):
    Policy CMP0153 is not set: The exec_program command should not be called.
    Run "cmake --help-policy CMP0153" for policy details.  Use the cmake_policy
    command to set the policy and suppress this warning.

    Use execute_process() instead.
  Call Stack (most recent call first):
    CMakeLists.txt:57 (getuname)
  This warning is for project developers.  Use -Wno-dev to suppress it.

  CMake Warning (dev) at CMakeLists.txt:54 (exec_program):
    Policy CMP0153 is not set: The exec_program command should not be called.
    Run "cmake --help-policy CMP0153" for policy details.  Use the cmake_policy
    command to set the policy and suppress this warning.

    Use execute_process() instead.
  Call Stack (most recent call first):
    CMakeLists.txt:58 (getuname)
  This warning is for project developers.  Use -Wno-dev to suppress it.

  -- HDF5_UTF8_PATHS (HDF5 version 1.10.6+): ON
  >>> Standard Filter: szip
  >>> Standard Filter: blosc
  >>> Standard Filter: zstd
  >>> Standard Filter: bz2
  CMake Error: File /home/max/.cargo/registry/src/index.crates.io-6f17d22bba15001f/netcdf-src-0.3.3/source/h5_test/run_par_tests.sh.in does not exist.
  CMake Error at CMakeLists.txt:1500 (configure_file):
    configure_file Problem configuring file

  CMake Error at CMakeLists.txt:1502 (FILE):
    FILE COPY cannot find
    "/home/max/dev/bug/target/release/build/netcdf-src-e0c5a24fb58674c7/out/build/tmp/run_par_tests.sh":
    No such file or directory.

  CMake Warning at CMakeLists.txt:1642 (MESSAGE):
    ENABLE_FILTER_TESTING requires shared libraries.  Disabling.

  CMake Warning at CMakeLists.txt:1651 (MESSAGE):
    ENABLE_FILTER_TESTING requires shared libraries.  Disabling.

  CMake Warning at CMakeLists.txt:1656 (MESSAGE):
    ENABLE_NCZARR==NO => ENABLE_NCZARR_FILTERS==NO AND
    ENABLE_NCZARR_FILTER_TESTING==NO

  Configuration Summary:

  Building Parallel NetCDF

  Tests Enabled:              OFF

  Compiler:

  thread 'main' panicked at /home/max/.cargo/registry/src/index.crates.io-6f17d22bba15001f/cmake-0.1.50/src/lib.rs:1098:5:

  command did not execute successfully, got: exit status: 1

  build script failed, must exit now
  note: run with `RUST_BACKTRACE=1` environment variable to display a backtrace

[max-te]

A workaround is to force a debug-build of hdf5-src:

[profile.release.package.hdf5-src]
opt-level = 0

[mulimoen]

Seems strange that the debug build of hdf5-src should fix this problem. Is the parallel flag enabled only for the release build of hdf5?

[mulimoen]

You should be able to run cargo update netcdf-src and get the fix

[max-te]

Thanks, it compiles now, but as soon as I use e.g. netcdf::open, the linking fails:

error: linking with `cc` failed: exit status: 1
  |
  = note: LC_ALL="C" PATH="/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/bin:/home/max/.cache/zsh/zinit/polaris/bin:/home/max/.nix-profile/bin:/nix/var/nix/profiles/default/bin:/home/max/.nix-profile/bin:/nix/var/nix/profiles/default/bin:/usr/local/sbin:/usr/local/bin:/usr/bin:/opt/android-sdk/platform-tools:/var/lib/flatpak/exports/bin:/usr/lib/jvm/default/bin:/usr/bin/site_perl:/usr/bin/vendor_perl:/usr/bin/core_perl:/opt/rocm/bin:/usr/lib/rustup/bin:/opt/android-sdk/platform-tools:/home/max/.cargo/bin:/home/max/.local/bin" VSLANG="1033" "cc" "-m64" "/tmp/rustcv55eTS/symbols.o" "/home/max/dev/bug/target/release/deps/bug-a2b8f3e61be9efc4.bug.ccaa775bfa9f94d7-cgu.0.rcgu.o" "/home/max/dev/bug/target/release/deps/bug-a2b8f3e61be9efc4.2do8gvq4tu6jf2q2.rcgu.o" "-Wl,--as-needed" "-L" "/home/max/dev/bug/target/release/deps" "-L" "/home/max/dev/bug/target/release/build/netcdf-src-0f716cb9ba04d569/out/lib" "-L" "/home/max/dev/bug/target/release/build/hdf5-src-614e7233f98d8695/out/lib" "-L" "/home/max/dev/bug/target/release/build/libz-sys-97b733af6dc36c2b/out/lib" "-L" "/home/max/dev/bug/target/release/build/libz-sys-97b733af6dc36c2b/out/lib" "-L" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib" "-Wl,-Bstatic" "/home/max/dev/bug/target/release/deps/libnetcdf-54d0061f1408d96a.rlib" "/home/max/dev/bug/target/release/deps/libbitflags-e1edd608d2279ef5.rlib" "/home/max/dev/bug/target/release/deps/libndarray-a520037548548015.rlib" "/home/max/dev/bug/target/release/deps/libmatrixmultiply-77af54bfaf3802cc.rlib" "/home/max/dev/bug/target/release/deps/libnum_complex-eecdf8110d69816a.rlib" "/home/max/dev/bug/target/release/deps/libnum_integer-72aa4e2196cd81c4.rlib" "/home/max/dev/bug/target/release/deps/libnum_traits-e1c3e3ffc27f3447.rlib" "/home/max/dev/bug/target/release/deps/librawpointer-75fd1a582b448a5f.rlib" "/home/max/dev/bug/target/release/deps/libnetcdf_sys-076c07e3415d6306.rlib" "/home/max/dev/bug/target/release/deps/libnetcdf_src-593ebe26b88c6da0.rlib" "/home/max/dev/bug/target/release/deps/libhdf5_sys-142811e55ce0bac4.rlib" "/home/max/dev/bug/target/release/deps/liblibc-8fe09481f39ba46e.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libstd-2d08990d644ac786.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libpanic_unwind-6f2d4ec7ff80253d.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libobject-c194d68892442324.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libmemchr-9a71c52c5946f83b.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libaddr2line-ae9aec4ce2dabc4f.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libgimli-6a207457d27610cc.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/librustc_demangle-fb1d2514710eef16.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libstd_detect-e36e7ed4b08caeac.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libhashbrown-9e8dafdf0a1b7ecd.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/librustc_std_workspace_alloc-b218f37fe3c9ce2e.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libminiz_oxide-20c30954fd9b5ef4.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libadler-6d3dfaf536d51163.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libunwind-cb4ce50789112af8.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libcfg_if-9897980a3b548e05.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/liblibc-b7bd4d010c784af2.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/liballoc-6d4515df28ba3369.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/librustc_std_workspace_core-e28568c1a21499f7.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libcore-eedf3675950a13c2.rlib" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libcompiler_builtins-715e69127681e2e0.rlib" "-Wl,-Bdynamic" "-lgcc_s" "-lutil" "-lrt" "-lpthread" "-lm" "-ldl" "-lc" "-Wl,--eh-frame-hdr" "-Wl,-z,noexecstack" "-L" "/home/max/.rustup/toolchains/stable-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib" "-o" "/home/max/dev/bug/target/release/deps/bug-a2b8f3e61be9efc4" "-Wl,--gc-sections" "-pie" "-Wl,-z,relro,-z,now" "-Wl,-O1" "-Wl,--strip-debug" "-nodefaultlibs"
  = note: /usr/bin/ld: /home/max/dev/bug/target/release/deps/libnetcdf_sys-076c07e3415d6306.rlib(hdf5create.c.o): in function `nc4_create_file':
          /home/max/.cargo/registry/src/index.crates.io-6f17d22bba15001f/netcdf-src-0.3.4/source/libhdf5/hdf5create.c:205:(.text.NC4_create+0x3a3): undefined reference to `H5Pset_all_coll_metadata_ops'
          /usr/bin/ld: /home/max/.cargo/registry/src/index.crates.io-6f17d22bba15001f/netcdf-src-0.3.4/source/libhdf5/hdf5create.c:207:(.text.NC4_create+0x3ba): undefined reference to `H5Pset_coll_metadata_write'
          collect2: error: ld returned 1 exit status

  = note: some `extern` functions couldn't be found; some native libraries may need to be installed or have their path specified
  = note: use the `-l` flag to specify native libraries to link
  = note: use the `cargo:rustc-link-lib` directive to specify the native libraries to link with Cargo (see https://doc.rust-lang.org/cargo/reference/build-scripts.html#rustc-link-lib)

I suspect that this is an upstream problem in hdf5-src and it doesn't set the correct flags in release builds.

[mulimoen]

This seems like two versions of hdf5 are installed, and the wrong one is linked. This could either happen on the rust side, or by cmake when building netcdf-c. Do you have a way for me to replicate your environment?

[max-te]

That was a pointer in the right direction. I do have hdf5-openmpi 1.14.3 installed on my system (Arch Linux) as a dependency of FreeCAD. When I uninstall that and cargo clean, the release build works! So it looks like the system installed hdf5 is preferred over the statically built one during linking. This does not trigger for unoptimized builds since there _d is added to the library name.