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Closed
zingi opened this issue Jul 13, 2021 · 6 comments
Closed

Using feature 'static' seems broken #164

zingi opened this issue Jul 13, 2021 · 6 comments

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@zingi
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zingi commented Jul 13, 2021 •
edited
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Problem

I wanted to build a project with:

# Cargo.toml
[dependencies]                                         
netcdf = {  version = "0.6.1", features = ["static"]  }

which should also build hdf5-sys with the static feature.

But I get following error:

Error Message 
❯ cargo build
    Updating crates.io index
  Downloaded cc v1.0.69
  Downloaded netcdf-sys v0.3.5
  Downloaded num-integer v0.1.44
  Downloaded aho-corasick v0.7.18
  Downloaded netcdf v0.6.1
  Downloaded lazy_static v1.4.0
  Downloaded autocfg v1.0.1
  Downloaded num-traits v0.2.14
  Downloaded libloading v0.6.7
  Downloaded matrixmultiply v0.2.4
  Downloaded memchr v2.4.0
  Downloaded hdf5-sys v0.7.1
  Downloaded ndarray v0.14.0
  Downloaded cfg-if v1.0.0
  Downloaded bitflags v1.2.1
  Downloaded regex v1.5.4
  Downloaded pkg-config v0.3.19
  Downloaded libc v0.2.98
  Downloaded regex-syntax v0.6.25
  Downloaded num-complex v0.3.1
  Downloaded libz-sys v1.1.3
  Downloaded rawpointer v0.2.1
  Downloaded cmake v0.1.45
  Downloaded hdf5-src v0.7.1
  Downloaded netcdf-src v0.1.3
  Downloaded 25 crates (11.3 MB) in 2.03s (largest was `netcdf-src` at 4.6 MB)
   Compiling cc v1.0.69
   Compiling pkg-config v0.3.19
   Compiling memchr v2.4.0
   Compiling cfg-if v1.0.0
   Compiling regex-syntax v0.6.25
   Compiling autocfg v1.0.1
   Compiling libc v0.2.98
   Compiling ndarray v0.14.0
   Compiling bitflags v1.2.1
   Compiling rawpointer v0.2.1
   Compiling netcdf-sys v0.3.5
   Compiling lazy_static v1.4.0
   Compiling libloading v0.6.7
   Compiling matrixmultiply v0.2.4
   Compiling num-traits v0.2.14
   Compiling num-integer v0.1.44
   Compiling cmake v0.1.45
   Compiling aho-corasick v0.7.18
   Compiling libz-sys v1.1.3
   Compiling hdf5-src v0.7.1
   Compiling netcdf-src v0.1.3
   Compiling num-complex v0.3.1
   Compiling regex v1.5.4
   Compiling hdf5-sys v0.7.1
error: failed to run custom build command for `hdf5-src v0.7.1`

Caused by:
  process didn't exit successfully: `/Users/aaron/repos/work/metgis/wrf-gfs-api/conversion/nc_to_tif/target/debug/build/hdf5-src-a3c2d79992f15fa2/build-script-build` (exit status: 101)
  --- stdout
  cargo:rerun-if-changed=build.rs
  cargo:zlib_header=/Users/aaron/repos/work/metgis/wrf-gfs-api/conversion/nc_to_tif/target/debug/build/libz-sys-94eeb5c964414683/out/include/zlib.h
  cargo:zlib=z
  cargo:hl_library=hdf5_hl_debug
  running: "cmake" "/Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5" "-DHDF5_NO_PACKAGES=ON" "-DBUILD_SHARED_LIBS=OFF" "-DBUILD_TESTING=OFF" "-DHDF5_BUILD_TOOLS=OFF" "-DHDF5_BUILD_EXAMPLES=OFF" "-DHDF5_BUILD_JAVA=OFF" "-DHDF5_BUILD_FORTRAN=OFF" "-DHDF5_BUILD_CPP_LIB=OFF" "-DHDF5_ENABLE_PARALLEL=OFF" "-DHDF5_ENABLE_DEPRECATED_SYMBOLS=OFF" "-DHDF5_ENABLE_THREADSAFE=OFF" "-DALLOW_UNSUPPORTED=OFF" "-DHDF5_BUILD_HL_LIB=OFF" "-DHDF5_ENABLE_Z_LIB_SUPPORT=ON" "-DH5_ZLIB_HEADER=/Users/aaron/repos/work/metgis/wrf-gfs-api/conversion/nc_to_tif/target/debug/build/libz-sys-94eeb5c964414683/out/include/zlib.h" "-DZLIB_STATIC_LIBRARY=z" "-DHDF5_ENABLE_DEPRECATED_SYMBOLS=ON" "-DHDF5_BUILD_HL_LIB=ON" "-DCMAKE_INSTALL_PREFIX=/Users/aaron/repos/work/metgis/wrf-gfs-api/conversion/nc_to_tif/target/debug/build/hdf5-src-597bb74f8e4b121a/out" "-DCMAKE_C_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64 -arch x86_64" "-DCMAKE_C_COMPILER=/usr/bin/cc" "-DCMAKE_CXX_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64 -arch x86_64" "-DCMAKE_CXX_COMPILER=/usr/bin/c++" "-DCMAKE_ASM_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64 -arch x86_64" "-DCMAKE_ASM_COMPILER=/usr/bin/cc" "-DCMAKE_BUILD_TYPE=Debug"
  -- The C compiler identification is AppleClang 12.0.5.12050022
  -- 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
  -- SOVERSION: 103.2.0
  -- SOVERSION_TOOLS: 100.1.3
  -- SOVERSION_CXX: 103.2.0
  -- SOVERSION_F: 102.0.1
  -- SOVERSION_HL: 100.1.3
  -- SOVERSION_HL_CXX: 100.1.4
  -- SOVERSION_HL_F: 100.0.5
  -- SOVERSION_JAVA: 100.4.1
  -- 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 5 include files sys/file.h, ..., sys/stat.h
  -- Looking for 5 include files sys/file.h, ..., sys/stat.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 7 include files sys/file.h, ..., sys/types.h
  -- Looking for 7 include files sys/file.h, ..., sys/types.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 9 include files sys/file.h, ..., setjmp.h
  -- Looking for 9 include files sys/file.h, ..., setjmp.h - found
  -- Looking for 10 include files sys/file.h, ..., stddef.h
  -- Looking for 10 include files sys/file.h, ..., stddef.h - found
  -- Looking for 11 include files sys/file.h, ..., stdint.h
  -- Looking for 11 include files sys/file.h, ..., stdint.h - found
  -- Looking for 12 include files sys/file.h, ..., unistd.h
  -- Looking for 12 include files sys/file.h, ..., unistd.h - found
  -- Looking for 13 include files sys/file.h, ..., mach/mach_time.h
  -- Looking for 13 include files sys/file.h, ..., mach/mach_time.h - found
  -- Looking for 14 include files sys/file.h, ..., io.h
  -- Looking for 14 include files sys/file.h, ..., io.h - not found
  -- Looking for 14 include files sys/file.h, ..., winsock2.h
  -- Looking for 14 include files sys/file.h, ..., winsock2.h - not found
  -- Looking for 14 include files sys/file.h, ..., sys/timeb.h
  -- Looking for 14 include files sys/file.h, ..., sys/timeb.h - found
  -- Looking for 15 include files sys/file.h, ..., globus/common.h
  -- Looking for 15 include files sys/file.h, ..., globus/common.h - not found
  -- Looking for 15 include files sys/file.h, ..., pdb.h
  -- Looking for 15 include files sys/file.h, ..., pdb.h - not found
  -- Looking for 15 include files sys/file.h, ..., pthread.h
  -- Looking for 15 include files sys/file.h, ..., pthread.h - found
  -- Looking for 16 include files sys/file.h, ..., srbclient.h
  -- Looking for 16 include files sys/file.h, ..., srbclient.h - not found
  -- Looking for 16 include files sys/file.h, ..., string.h
  -- Looking for 16 include files sys/file.h, ..., string.h - found
  -- Looking for 17 include files sys/file.h, ..., strings.h
  -- Looking for 17 include files sys/file.h, ..., strings.h - found
  -- Looking for 18 include files sys/file.h, ..., stdlib.h
  -- Looking for 18 include files sys/file.h, ..., stdlib.h - found
  -- Looking for 19 include files sys/file.h, ..., memory.h
  -- Looking for 19 include files sys/file.h, ..., memory.h - found
  -- Looking for 20 include files sys/file.h, ..., dlfcn.h
  -- Looking for 20 include files sys/file.h, ..., dlfcn.h - found
  -- Looking for 21 include files sys/file.h, ..., inttypes.h
  -- Looking for 21 include files sys/file.h, ..., inttypes.h - found
  -- Looking for 22 include files sys/file.h, ..., netinet/in.h
  -- Looking for 22 include files sys/file.h, ..., netinet/in.h - found
  -- Looking for 23 include files sys/file.h, ..., stdbool.h
  -- Looking for 23 include files sys/file.h, ..., stdbool.h - found
  -- Looking for include file quadmath.h
  -- Looking for include file quadmath.h - not 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
  -- Performing Other Test STDC_HEADERS - Success
  -- Performing Other Test HAVE_OFF64_T - Failed
  -- Looking for fseeko
  -- Looking for fseeko - found
  -- Performing Other Test HAVE_STAT64_STRUCT - Success
  -- Looking for stat64
  -- Looking for stat64 - found
  -- 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 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
  -- Performing Other Test DEV_T_IS_SCALAR - Success
  -- Looking for CLOCK_MONOTONIC
  -- Looking for CLOCK_MONOTONIC - not found
  -- Looking for gettimeofday
  -- Looking for gettimeofday - found
  -- Performing Other Test HAVE_TM_GMTOFF - Success
  -- Performing Other Test HAVE___TM_GMTOFF - Failed
  -- Performing Other Test HAVE_STRUCT_TIMEZONE - Success
  -- Performing Other Test GETTIMEOFDAY_GIVES_TZ - Success
  -- Performing Other Test TIME_WITH_SYS_TIME - Success
  -- Performing Other Test HAVE_TM_ZONE - Failed
  -- Performing Other Test HAVE_STRUCT_TM_TM_ZONE - Failed
  -- Performing Other Test HAVE_TIMEZONE - Success
  -- Performing Other Test HAVE_STAT_ST_BLOCKS - Success
  -- Looking for ioctl
  -- Looking for ioctl - found
  -- Performing Other Test HAVE_STRUCT_VIDEOCONFIG - Failed
  -- Performing Other Test HAVE_STRUCT_TEXT_INFO - Failed
  -- Looking for _getvideoconfig
  -- Looking for _getvideoconfig - not found
  -- Looking for gettextinfo
  -- Looking for gettextinfo - not found
  -- Looking for _scrsize
  -- Looking for _scrsize - not found
  -- Looking for GetConsoleScreenBufferInfo
  -- Looking for GetConsoleScreenBufferInfo - not found
  -- Looking for TIOCGWINSZ
  -- Looking for TIOCGWINSZ - found
  -- Looking for TIOCGETD
  -- Looking for TIOCGETD - found
  -- Looking for getpwuid
  -- Looking for getpwuid - found
  -- Looking for alarm
  -- Looking for alarm - found
  -- Looking for fcntl
  -- Looking for fcntl - found
  -- Looking for flock
  -- Looking for flock - found
  -- Looking for fork
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  -- Looking for frexpf
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  -- Looking for gethostname
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  -- Looking for lround - found
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  -- Looking for lroundf - found
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  -- Looking for rand_r
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  -- Looking for random - found
  -- Looking for round
  -- Looking for round - found
  -- Looking for roundf
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  -- Looking for setsysinfo
  -- Looking for setsysinfo - not found
  -- Looking for signal
  -- Looking for signal - found
  -- Looking for longjmp
  -- Looking for longjmp - found
  -- Looking for setjmp
  -- Looking for setjmp - found
  -- Looking for siglongjmp
  -- Looking for siglongjmp - found
  -- Looking for sigsetjmp
  -- Looking for sigsetjmp - found
  -- Looking for sigprocmask
  -- Looking for sigprocmask - found
  -- Looking for snprintf
  -- Looking for snprintf - found
  -- Looking for srandom
  -- Looking for srandom - found
  -- Looking for strdup
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  -- Looking for strtoll
  -- Looking for strtoll - found
  -- Looking for strtoull
  -- Looking for strtoull - found
  -- Looking for symlink
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  -- Looking for system
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  -- Looking for tmpfile
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  -- Looking for asprintf
  -- Looking for asprintf - found
  -- Looking for vasprintf
  -- Looking for vasprintf - found
  -- Looking for waitpid
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  -- Looking for vsnprintf
  -- Looking for vsnprintf - found
  -- Performing Other Test VSNPRINTF_WORKS - Success
  -- Performing Other Test HAVE_ATTRIBUTE - Success
  -- Performing Other Test HAVE_C99_FUNC - Success
  -- Performing Other Test HAVE_FUNCTION - Success
  -- Performing Other Test HAVE_C99_DESIGNATED_INITIALIZER - Success
  -- Performing Other Test SYSTEM_SCOPE_THREADS - Success
  -- Performing Other Test HAVE_SOCKLEN_T - Success
  -- Performing Other Test HAVE_INLINE - Success
  -- Performing Other Test HAVE___INLINE__ - Success
  -- Performing Other Test HAVE___INLINE - Success
  -- Checking for appropriate format for 64 bit long:
  -- Checking for appropriate format for 64 bit long: found "l"
  -- Looking for difftime
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  -- Looking for clock_gettime in rt
  -- Looking for clock_gettime in rt - not found
  -- Looking for clock_gettime in posix4
  -- Looking for clock_gettime in posix4 - not found
  -- Check size of __float128
  -- Check size of __float128 - failed
  -- Check size of _Quad
  -- Check size of _Quad - failed
  -- Checking IF your system converts long double to (unsigned) long values with special algorithm... no
  -- Checking IF your system can convert (unsigned) long to long double values with special algorithm... no
  -- Checking IF correctly converting long double to (unsigned) long long values... yes
  -- Checking IF correctly converting (unsigned) long long to long double values... yes
  -- Checking IF the cpu is power9 and cannot correctly converting long double values... no
  -- Checking IF alignment restrictions are strictly enforced... yes
  -- Warnings Configuration:
  -- Filter ZLIB is ON
  -- Found Perl: /usr/local/bin/perl (found version "5.34.0")
  --
  --
  --
  -- Configuring done
  -- Generating done
  -- Build files have been written to: /Users/aaron/repos/work/metgis/wrf-gfs-api/conversion/nc_to_tif/target/debug/build/hdf5-src-597bb74f8e4b121a/out/build
  running: "cmake" "--build" "." "--target" "install" "--config" "Debug" "--"
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  --- stderr
  Can't open perl script "/Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/bin/make_err": No such file or directory
  Can't open perl script "/Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/bin/make_vers": No such file or directory
  Can't open perl script "/Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/bin/make_overflow": No such file or directory
  CMake Warning:
    Manually-specified variables were not used by the project:

      CMAKE_ASM_COMPILER
      CMAKE_ASM_FLAGS


  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Aint.c:200:45: warning: passing 'const H5T_t *' (aka 'const struct H5T_t *') to parameter of type 'H5T_t *' (aka 'struct H5T_t *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
      if(NULL == (attr->shared->dt = H5T_copy(type, H5T_COPY_ALL)))
                                              ^~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Tprivate.h:108:31: note: passing argument to parameter 'old_dt' here
  H5_DLL H5T_t *H5T_copy(H5T_t *old_dt, H5T_copy_t method);
                                ^
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Adense.c:331:16: warning: initializing 'H5A_t *' (aka 'struct H5A_t *') with an expression of type 'const H5A_t *' (aka 'const struct H5A_t *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
          H5A_t *old_attr = *user_attr;
                 ^          ~~~~~~~~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Aint.c:638:71: warning: passing 'const H5T_t *' (aka 'const struct H5T_t *') to parameter of type 'H5T_t *' (aka 'struct H5T_t *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
                          (dst_id = H5I_register(H5I_DATATYPE, H5T_copy(mem_type, H5T_COPY_ALL), FALSE)) < 0)
                                                                        ^~~~~~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Tprivate.h:108:31: note: passing argument to parameter 'old_dt' here
  H5_DLL H5T_t *H5T_copy(H5T_t *old_dt, H5T_copy_t method);
                                ^
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Aint.c:738:62: warning: passing 'const H5T_t *' (aka 'const struct H5T_t *') to parameter of type 'H5T_t *' (aka 'struct H5T_t *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
              if((src_id = H5I_register(H5I_DATATYPE, H5T_copy(mem_type, H5T_COPY_ALL), FALSE)) < 0 ||
                                                               ^~~~~~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Tprivate.h:108:31: note: passing argument to parameter 'old_dt' here
  H5_DLL H5T_t *H5T_copy(H5T_t *old_dt, H5T_copy_t method);
                                ^
  1 warning generated.
  3 warnings generated.
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Dfill.c:239:62: warning: passing 'const H5T_t *' (aka 'const struct H5T_t *') to parameter of type 'H5T_t *' (aka 'struct H5T_t *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
              if((src_id = H5I_register(H5I_DATATYPE, H5T_copy(fill_type, H5T_COPY_ALL), FALSE)) < 0)
                                                               ^~~~~~~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Tprivate.h:108:31: note: passing argument to parameter 'old_dt' here
  H5_DLL H5T_t *H5T_copy(H5T_t *old_dt, H5T_copy_t method);
                                ^
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Dfill.c:242:62: warning: passing 'const H5T_t *' (aka 'const struct H5T_t *') to parameter of type 'H5T_t *' (aka 'struct H5T_t *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
              if((dst_id = H5I_register(H5I_DATATYPE, H5T_copy(buf_type, H5T_COPY_ALL), FALSE)) < 0)
                                                               ^~~~~~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Tprivate.h:108:31: note: passing argument to parameter 'old_dt' here
  H5_DLL H5T_t *H5T_copy(H5T_t *old_dt, H5T_copy_t method);
                                ^
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Dfill.c:408:54: warning: passing 'const H5T_t *' (aka 'const struct H5T_t *') to parameter of type 'H5T_t *' (aka 'struct H5T_t *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
              if(NULL == (fb_info->mem_type = H5T_copy(dset_type, H5T_COPY_TRANSIENT)))
                                                       ^~~~~~~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Tprivate.h:108:31: note: passing argument to parameter 'old_dt' here
  H5_DLL H5T_t *H5T_copy(H5T_t *old_dt, H5T_copy_t method);
                                ^
  3 warnings generated.
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Dint.c:534:43: warning: passing 'const H5T_t *' (aka 'const struct H5T_t *') to parameter of type 'H5T_t *' (aka 'struct H5T_t *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
          if((dset->shared->type = H5T_copy(type, H5T_COPY_ALL)) == NULL)
                                            ^~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Tprivate.h:108:31: note: passing argument to parameter 'old_dt' here
  H5_DLL H5T_t *H5T_copy(H5T_t *old_dt, H5T_copy_t method);
                                ^
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Dchunk.c:5830:95: warning: passing 'const hsize_t *' (aka 'const unsigned long long *') to parameter of type 'hsize_t *' (aka 'unsigned long long *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
      if(H5D__chunk_file_alloc(udata->idx_info_dst, NULL, &udata_dst.chunk_block, &need_insert, udata_dst.common.scaled) < 0)
                                                                                                ^~~~~~~~~~~~~~~~~~~~~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Dpkg.h:656:59: note: passing argument to parameter 'scaled' here
      H5F_block_t *new_chunk, hbool_t *need_insert, hsize_t scaled[]);
                                                            ^
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Dchunk.c:5967:39: warning: passing 'const H5T_t *' (aka 'const struct H5T_t *') to parameter of type 'H5T_t *' (aka 'struct H5T_t *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
          if(NULL == (dt_mem = H5T_copy(dt_src, H5T_COPY_TRANSIENT)))
                                        ^~~~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Tprivate.h:108:31: note: passing argument to parameter 'old_dt' here
  H5_DLL H5T_t *H5T_copy(H5T_t *old_dt, H5T_copy_t method);
                                ^
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Dchunk.c:5975:39: warning: passing 'const H5T_t *' (aka 'const struct H5T_t *') to parameter of type 'H5T_t *' (aka 'struct H5T_t *') discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
          if(NULL == (dt_dst = H5T_copy(dt_src, H5T_COPY_TRANSIENT)))
                                        ^~~~~~
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Tprivate.h:108:31: note: passing argument to parameter 'old_dt' here
  H5_DLL H5T_t *H5T_copy(H5T_t *old_dt, H5T_copy_t method);
                                ^
  1 warning generated.
  3 warnings generated.
  /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/src/H5Fsuper.c:1397:16: error: implicit declaration of function 'H5O__fsinfo_set_version' is invalid in C99 [-Werror,-Wimplicit-function-declaration]
              if(H5O__fsinfo_set_version(f, &fsinfo) < 0)
                 ^
  1 error generated.
  make[2]: *** [src/CMakeFiles/hdf5-static.dir/H5Fsuper.c.o] Error 1
  make[2]: *** Waiting for unfinished jobs....
  make[1]: *** [src/CMakeFiles/hdf5-static.dir/all] Error 2
  make: *** [all] Error 2
  thread 'main' panicked at '
  command did not execute successfully, got: exit status: 2

  build script failed, must exit now', /Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/cmake-0.1.45/src/lib.rs:894:5
  note: run with `RUST_BACKTRACE=1` environment variable to display a backtrace

It seems like, that there is something missing from the git submodule located here: https://github.com/aldanor/hdf5-rust/tree/master/hdf5-src/ext

Excerpt from error logs:

  Can't open perl script "/Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/bin/make_err": No such file or directory
  Can't open perl script "/Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/bin/make_vers": No such file or directory
  Can't open perl script "/Users/aaron/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5/bin/make_overflow": No such file or directory

Temporary Fix

When I download the content of the referenced hdf5 version ( hdf5 db30c2d ) manually and replace all content in ~/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5 it builds successfully.

System Information

I am using: rustc 1.53.0 (53cb7b09b 2021-06-17),
but I also tried with: 1.52-x86_64-apple-darwin toolchain and 1.50-x86_64-apple-darwin toolchain.
@zingi zingi changed the title Using feature 'static' is broken Using feature 'static' seems broken Jul 13, 2021
@zingi
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zingi commented Jul 13, 2021

CleanShot 2021-07-13 at 15 55 17

left: content of ~/.cargo/registry/src/github.com-1ecc6299db9ec823/hdf5-src-0.7.1/ext/hdf5
right: content of manually downloaded hdf5 db30c2d

@mulimoen
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Seems my exclude directives where a bit too much. I will make a PR to include these files. Thanks for the detailed explanation!

@mulimoen mulimoen mentioned this issue Jul 13, 2021
Closed
@zingi
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zingi commented Jul 14, 2021

@mulimoen It seems like that the missing files are only required on macOS for successful building.
On linux the problem does not occur.

@mulimoen
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@zingi It is a bit strange that this fails for you, the CI on georust/netcdf is trying to test a static build. Do you have a unique setup we should integrate into our CI?

@zingi
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zingi commented Jul 14, 2021

I don't have any special setup. I was just starting a project:

# Cargo.toml

[dependencies]
netcdf = {  version = "0.6.1", features = ["static"] }
// main.rs

use std::path::Path;

fn main() {
    let nc = netcdf::open(Path::new("/path/to/a/file.nc")).unwrap();
    println!("{:?}", nc);
}
  • On macOS this code does not compile without the manual fix.
  • On linux/PopOS/Ubuntu it does compile without problems.

@mulimoen mulimoen mentioned this issue Jul 15, 2021
Closed
@aldanor aldanor mentioned this issue Oct 23, 2021
Merged
@aldanor
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aldanor commented Oct 23, 2021

Closed in #179

@aldanor aldanor closed this as completed Oct 23, 2021
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Missing build files for static build mulimoen/hdf5-rust
3 participants
@aldanor @zingi @mulimoen