[MacPorts] #66208: hdf5 @1.12.2_0+cxx+gcc12+hl: Port hdf5 is still broken (cxx_stdlib mismatch) after rebuilding it more than 3 times.

MacPorts noreply at macports.org
Mon Feb 6 11:10:40 UTC 2023


#66208: hdf5 @1.12.2_0+cxx+gcc12+hl: Port hdf5 is still broken (cxx_stdlib
mismatch) after rebuilding it more than 3 times.
------------------------+----------------------
  Reporter:  massonseb  |      Owner:  eborisch
      Type:  defect     |     Status:  assigned
  Priority:  Normal     |  Milestone:
 Component:  ports      |    Version:  2.8.0
Resolution:             |   Keywords:
      Port:  hdf5       |
------------------------+----------------------

Comment (by massonseb):

 ebd22613 has been added in macport 2.8.1 \\
 See https://github.com/macports/macports-base/releases/tag/v2.8.1

 I installed it and I can indeed see the modifications of ebd22613 in
 {{{
 /opt/local/libexec/macports/lib/port1.0/portconfigure.tcl
 /opt/local/var/macports/sources/rsync.macports.org/macports/release/tarballs/base/src/port1.0/portconfigure.tcl
 }}}
 which are the same files.

 However `sudo port install hdf5 +gcc12` or `sudo port install hdf5 +gcc12
 +openmpi` are still not working.

 I get exactly the same error in the log file:

 {{{
 :info:build Undefined symbols for architecture arm64:
 :info:build
 "__ZNKSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEE7compareEPKc",
 referenced from:
 :info:build       __ZNK2H510AbstractDs12getTypeClassEv in H5AbstractDs.o
 :info:build
 "__ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEE10_M_disposeEv",
 referenced from:
 :info:build
 __ZN2H59ExceptionC4ERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES8_
 in H5Exception.o
 :info:build       __ZN2H59ExceptionC4ERKS0_ in H5Exception.o
 :info:build       __ZN2H59ExceptionC4Ev in H5Exception.o
 ...
 :info:build       __ZN2H57DataSetD4Ev in H5DataSet.o
 :info:build       __ZN2H55GroupD4Ev in H5Group.o
 :info:build       __ZN2H56H5FileD4Ev in H5File.o
 :info:build       ...
 :info:build ld: symbol(s) not found for architecture arm64
 :info:build collect2: error: ld returned 1 exit status
 :info:build make[2]: *** [libhdf5_cpp.la] Error 1
 :info:build make[2]: Leaving directory
 `/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_science_hdf5/hdf5/work/hdf5-1.14.0/c++/src'
 :info:build make[1]: *** [all-recursive] Error 1
 :info:build make[1]: Leaving directory
 `/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_science_hdf5/hdf5/work/hdf5-1.14.0/c++'
 :info:build make: *** [all-recursive] Error 1
 :info:build make: Leaving directory
 `/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_science_hdf5/hdf5/work/hdf5-1.14.0'
 :info:build Command failed:  cd
 "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_science_hdf5/hdf5/work/hdf5-1.14.0"
 && /usr/bin/make -j10 -w all
 :info:build Exit code: 2
 :error:build Failed to build hdf5: command execution failed
 :debug:build Error code: CHILDSTATUS 90996 2
 :debug:build Backtrace: command execution failed
 :debug:build     while executing
 :debug:build "system {*}$notty {*}$callback {*}$nice $fullcmdstring"
 :debug:build     invoked from within
 :debug:build "command_exec -callback
 portprogress::target_progress_callback build"
 :debug:build     (procedure "portbuild::build_main" line 8)
 :debug:build     invoked from within
 :debug:build "$procedure $targetname"
 :error:build See
 /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_science_hdf5/hdf5/main.log
 for details.
 }}}

 I attach the full log file.

 Which step did I miss? \\
 Should I re-install gcc12 or other packages before?

-- 
Ticket URL: <https://trac.macports.org/ticket/66208#comment:16>
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