[mvapich-discuss] subdir-objects issues with autogen.sh

[Jonathan Perkins]

Thanks for the note Jeff.  I'll take a look at this.

On Wed, Jan 22, 2014 at 1:30 PM, Jeff Hammond <jeff.science at gmail.com> wrote:
> I found that autogen.sh fails for
> https://mvapich.cse.ohio-state.edu/svn/mpi/mvapich2/branches/1.9
> because of what's in src/armci isn't compatible with recent versions
> of automake.  We fixed the issue with subdir-objects in ARMCI-MPI a
> while ago but after it was removed from the MPICH trunk and migrated
> from svn to git (with everything else in MPICH-land).
>
> As ARMCI-MPI has been a separate project for some time now, I
> recommend you resolve this issue by just deleting src/armci and all
> references to it.  I doubt anyone will miss it as all of the active
> users should be aware of http://git.mpich.org/armci-mpi.git/.
>
> In addition to running "svn rm src/armci", I think these are the
> changes you need to remote ARMCI-MPI:
>
> [jhammond at cu0login5 mv2-1.9-patches]$ svn diff autogen.sh maint/errmsgdirs
> Index: autogen.sh
> ===================================================================
> --- autogen.sh  (revision 6894)
> +++ autogen.sh  (working copy)
> @@ -102,7 +102,6 @@
>  confdb_dirs="${confdb_dirs} src/pm/hydra/confdb"
>  confdb_dirs="${confdb_dirs} src/pm/hydra/mpl/confdb"
>  confdb_dirs="${confdb_dirs} test/mpi/confdb"
> -confdb_dirs="${confdb_dirs} src/armci/m4"
>
>  # hydra's copy of mpl
>  sync_external src/mpl src/pm/hydra/mpl
> @@ -170,7 +169,7 @@
>  MAKE=${MAKE-make}
>
>  # external packages that require autogen.sh to be run for each of them
> -externals="src/pm/hydra src/mpi/romio src/armci src/pm/mpd src/openpa
> src/mpid/ch3/channels/mrail/src/hwloc"
> +externals="src/pm/hydra src/mpi/romio src/pm/mpd src/openpa
> src/mpid/ch3/channels/mrail/src/hwloc"
>  # amdirs are the directories that make use of autoreconf
>  amdirs=". src/mpl src/util/logging/rlog limic2-0.5.6"
>
> Index: maint/errmsgdirs
> ===================================================================
> --- maint/errmsgdirs    (revision 6894)
> +++ maint/errmsgdirs    (working copy)
> @@ -1 +1 @@
> -src/mpi src/mpi_t src/nameserv src/util src/binding src/include
> src/mpid src/pmi src/armci src/mutex
> +src/mpi src/mpi_t src/nameserv src/util src/binding src/include
> src/mpid src/pmi src/mutex
>
> Unfortunately, it seems MPL also has issues with subdir-objects.
> These are certainly fixed upstream in MPICH.  I guess I have to roll
> back to an older version of automake or try to merge the upstream
> fixes myself.
>
> Thanks,
>
> Jeff
>
> ------------------------------------------------------------------------
> running third-party initialization in src/armci
> libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, `m4'.
> libtoolize: copying file `m4/ltmain.sh'
> libtoolize: putting macros in AC_CONFIG_MACRO_DIR, `m4'.
> libtoolize: copying file `m4/libtool.m4'
> libtoolize: copying file `m4/ltoptions.m4'
> libtoolize: copying file `m4/ltsugar.m4'
> libtoolize: copying file `m4/ltversion.m4'
> libtoolize: copying file `m4/lt~obsolete.m4'
> configure.ac:22: installing 'm4/ar-lib'
> configure.ac:20: installing 'm4/compile'
> configure.ac:24: installing 'm4/config.guess'
> configure.ac:24: installing 'm4/config.sub'
> configure.ac:10: installing 'm4/install-sh'
> configure.ac:10: installing 'm4/missing'
> automake: warnings are treated as errors
> Makefile.am:13: warning: source file '$(top_srcdir)/src/buffer.c' is
> in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> automake: warning: possible forward-incompatibility.
> automake: At least a source file is in a subdirectory, but the 'subdir-objects'
> automake: automake option hasn't been enabled.  For now, the
> corresponding output
> automake: object file(s) will be placed in the top-level directory.  However,
> automake: this behaviour will change in future Automake versions: they will
> automake: unconditionally cause object files to be placed in the same
> subdirectory
> automake: of the corresponding sources.
> automake: You are advised to start using 'subdir-objects' option throughout your
> automake: project, to avoid future incompatibilities.
> Makefile.am:13: warning: source file '$(top_srcdir)/src/debug.c' is in
> a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/groups.c' is
> in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/internals.c'
> is in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/malloc.c' is
> in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/gmr.c' is in a
> subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/message.c' is
> in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/message_gop.c'
> is in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/mutex.c' is in
> a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file
> '$(top_srcdir)/src/mutex_hdl_queue.c' is in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/onesided.c' is
> in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/onesided_nb.c'
> is in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/rmw.c' is in a
> subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/strided.c' is
> in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/topology.c' is
> in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/util.c' is in
> a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/value_ops.c'
> is in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/vector.c' is
> in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file
> '$(top_srcdir)/src/init_finalize.c' is in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file
> '$(top_srcdir)/src/conflict_tree.c' is in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> Makefile.am:13: warning: source file '$(top_srcdir)/src/parmci.c' is
> in a subdirectory,
> Makefile.am:13: but option 'subdir-objects' is disabled
> automake: warning: source file 'benchmarks/bench_groups.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'benchmarks/bench_groups'
> automake: warning: source file 'benchmarks/contiguous-bench.c' is in a
> subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'benchmarks/contiguous-bench'
> automake: warning: source file 'benchmarks/ping-pong.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'benchmarks/ping-pong'
> automake: warning: source file 'benchmarks/ring-flood.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'benchmarks/ring-flood'
> automake: warning: source file 'benchmarks/strided-bench.c' is in a
> subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'benchmarks/strided-bench'
> automake: warning: source file 'tests/ARMCI_AccS_latency.c' is in a
> subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/ARMCI_AccS_latency'
> automake: warning: source file 'tests/ARMCI_PutS_latency.c' is in a
> subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/ARMCI_PutS_latency'
> automake: warning: source file 'tests/ctree/ctree_test.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/ctree/ctree_test'
> automake: warning: source file 'tests/ctree/ctree_test_rand.c' is in a
> subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/ctree/ctree_test_rand'
> automake: warning: source file
> 'tests/ctree/ctree_test_rand_interval.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program
> 'tests/ctree/ctree_test_rand_interval'
> automake: warning: source file 'tests/mpi/ping-pong-mpi.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/mpi/ping-pong-mpi'
> automake: warning: source file 'tests/mpi/test_mpi_accs.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/mpi/test_mpi_accs'
> automake: warning: source file 'tests/mpi/test_mpi_indexed_accs.c' is
> in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/mpi/test_mpi_indexed_accs'
> automake: warning: source file 'tests/mpi/test_mpi_indexed_gets.c' is
> in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/mpi/test_mpi_indexed_gets'
> automake: warning: source file
> 'tests/mpi/test_mpi_indexed_puts_gets.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program
> 'tests/mpi/test_mpi_indexed_puts_gets'
> automake: warning: source file 'tests/mpi/test_mpi_subarray_accs.c' is
> in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/mpi/test_mpi_subarray_accs'
> automake: warning: source file 'tests/mpi/test_win_create.c' is in a
> subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/mpi/test_win_create'
> automake: warning: source file 'tests/test_accs.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_accs'
> automake: warning: source file 'tests/test_accs_dla.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_accs_dla'
> automake: warning: source file 'tests/test_assert.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_assert'
> automake: warning: source file 'tests/test_group_split.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_group_split'
> automake: warning: source file 'tests/test_groups.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_groups'
> automake: warning: source file 'tests/test_igop.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_igop'
> automake: warning: source file 'tests/test_malloc.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_malloc'
> automake: warning: source file 'tests/test_malloc_group.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_malloc_group'
> automake: warning: source file 'tests/test_malloc_irreg.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_malloc_irreg'
> automake: warning: source file 'tests/test_mutex.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_mutex'
> automake: warning: source file 'tests/test_mutex_rmw.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_mutex_rmw'
> automake: warning: source file 'tests/test_mutex_trylock.c' is in a
> subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_mutex_trylock'
> automake: warning: source file 'tests/test_onesided.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_onesided'
> automake: warning: source file 'tests/test_onesided_shared.c' is in a
> subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_onesided_shared'
> automake: warning: source file 'tests/test_onesided_shared_dla.c' is
> in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_onesided_shared_dla'
> tests/Makefile.mk:77: warning: source file 'tests/test_parmci.c' is in
> a subdirectory,
> tests/Makefile.mk:77: but option 'subdir-objects' is disabled
> Makefile.am:52:   'tests/Makefile.mk' included from here
> tests/Makefile.mk:77: warning: source file 'tests/test_parmci_lib.c'
> is in a subdirectory,
> tests/Makefile.mk:77: but option 'subdir-objects' is disabled
> Makefile.am:52:   'tests/Makefile.mk' included from here
> automake: warning: source file 'tests/test_puts.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_puts'
> automake: warning: source file 'tests/test_puts_gets.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_puts_gets'
> automake: warning: source file 'tests/test_puts_gets_dla.c' is in a
> subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_puts_gets_dla'
> automake: warning: source file 'tests/test_rmw_fadd.c' is in a subdirectory,
> automake: but option 'subdir-objects' is disabled
> Makefile.am:44:   while processing program 'tests/test_rmw_fadd'
> Makefile.am: installing 'm4/depcomp'
> parallel-tests: installing 'm4/test-driver'
> autoreconf: automake failed with exit status: 1
>
> --
> Jeff Hammond
> jeff.science at gmail.com
>
> _______________________________________________
> mvapich-discuss mailing list
> mvapich-discuss at cse.ohio-state.edu
> http://mailman.cse.ohio-state.edu/mailman/listinfo/mvapich-discuss
>
>



-- 
Jonathan Perkins
http://www.cse.ohio-state.edu/~perkinjo