[MOAB-dev] buildbot failure in moab-cub-par-sha: failed test

Iulian Grindeanu iulian at mcs.anl.gov
Sat Nov 16 09:20:21 CST 2013 

Hello, 
This error indicates that for parallel shared builds, some tests executables are linked against the installation folder, not the build folder. 
Something is wrong, the error appears first in perf/point_location; this depends on mbcoupler, which needs iMesh. libiMesh.la has a reference to the installation through the "relink_command" (at least this is what I think it is happening) 

Of course, it is hard to reproduce the error, because the installation went through, and now the linking finds the new method (ParallelComm::update_shared_mesh()). So the next build will, very likely, succeed. 

We do not use very often these shared parallel builds, because our pnetcdf library and zoltan library are build statically. 

Does anyone have any suggestions? 
Every time we will have a new method, or a new signature, these shared builds will likely fail :( 

Iulian 
----- Original Message -----


Fathom : moab-cub-par-sha build #426 
Results: 	failed test 
Buildslave: 	gnep 
Revision: 	None Log Excerpt 
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1453: warning: unused parameter ‘attr’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1453: warning: unused parameter ‘ex’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1455: warning: unused parameter ‘oldcomm’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1455: warning: unused parameter ‘keyval’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1455: warning: unused parameter ‘ex’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1884: warning: unused parameter ‘oldwin’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1884: warning: unused parameter ‘keyval’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1884: warning: unused parameter ‘ex’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1884: warning: unused parameter ‘attr_in’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1884: warning: unused parameter ‘attr_out’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1886: warning: unused parameter ‘win’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1886: warning: unused parameter ‘keyval’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1886: warning: unused parameter ‘attr’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1886: warning: unused parameter ‘ex’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1888: warning: unused parameter ‘oldwin’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1888: warning: unused parameter ‘keyval’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1888: warning: unused parameter ‘ex’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1884: warning: unused parameter ‘oldwin’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1884: warning: unused parameter ‘keyval’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1884: warning: unused parameter ‘ex’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1884: warning: unused parameter ‘attr_in’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1884: warning: unused parameter ‘attr_out’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1886: warning: unused parameter ‘win’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1886: warning: unused parameter ‘keyval’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1886: warning: unused parameter ‘attr’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1886: warning: unused parameter ‘ex’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1888: warning: unused parameter ‘oldwin’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1888: warning: unused parameter ‘keyval’
/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/include/mpicxx.h:1888: warning: unused parameter ‘ex’
mv -f .deps/point_location.Tpo .deps/point_location.Po
/bin/sh ../../../libtool  --tag=CXX   --mode=link /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx  -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align  -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -O2 -DNDEBUG -R/homes/fathom/install/cubpar/cgm-sha/lib  -R/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin   -L/homes/fathom/3rdparty/netcdf/netcdf-4.0.1/parallel/gcc/lib     -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -L/homes/fathom/install/cubpar/cgm-sha/lib  -L/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib  -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -o point_location point_location.o ../../../src/libMOAB.la ../../../tools/mbcoupler/libmbcoupler.la -lm
mv -f .deps/elem_eval_time.Tpo .deps/elem_eval_time.Po
/bin/sh ../../../libtool  --tag=CXX   --mode=link /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx  -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align  -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -O2 -DNDEBUG -R/homes/fathom/install/cubpar/cgm-sha/lib  -R/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin   -L/homes/fathom/3rdparty/netcdf/netcdf-4.0.1/parallel/gcc/lib     -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -L/homes/fathom/install/cubpar/cgm-sha/lib  -L/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib  -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -o elem_eval_time elem_eval_time.o ../../../src/libMOAB.la ../../../tools/mbcoupler/libmbcoupler.la -lm
libtool: link: /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -O2 -DNDEBUG -o .libs/point_location point_location.o  -L/homes/fathom/3rdparty/netcdf/netcdf-4.0.1/parallel/gcc/lib -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -L/homes/fathom/install/cubpar/cgm-sha/lib -L/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin ../../../src/.libs/libMOAB.so ../../../tools/mbcoupler/.libs/libmbcoupler.so -lm -Wl,-rpath -Wl,/homes/fathom/install/cubpar/moab-sha/lib -Wl,-rpath -Wl,/homes/fathom/install/cubpar/cgm-sha/lib -Wl,-rpath -Wl,/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin
mv -f .deps/tree_searching_perf.Tpo .deps/tree_searching_perf.Po
/bin/sh ../../../libtool  --tag=CXX   --mode=link /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx  -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align  -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -O2 -DNDEBUG -R/homes/fathom/install/cubpar/cgm-sha/lib  -R/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin   -L/homes/fathom/3rdparty/netcdf/netcdf-4.0.1/parallel/gcc/lib     -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -L/homes/fathom/install/cubpar/cgm-sha/lib  -L/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib  -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -o tree_searching_perf tree_searching_perf.o ../../../src/libMOAB.la ../../../tools/mbcoupler/libmbcoupler.la -lm
libtool: link: /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -O2 -DNDEBUG -o .libs/elem_eval_time elem_eval_time.o  -L/homes/fathom/3rdparty/netcdf/netcdf-4.0.1/parallel/gcc/lib -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -L/homes/fathom/install/cubpar/cgm-sha/lib -L/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin ../../../src/.libs/libMOAB.so ../../../tools/mbcoupler/.libs/libmbcoupler.so -lm -Wl,-rpath -Wl,/homes/fathom/install/cubpar/moab-sha/lib -Wl,-rpath -Wl,/homes/fathom/install/cubpar/cgm-sha/lib -Wl,-rpath -Wl,/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin
mv -f .deps/sploc_searching_perf.Tpo .deps/sploc_searching_perf.Po
/bin/sh ../../../libtool  --tag=CXX   --mode=link /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx  -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align  -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -O2 -DNDEBUG -R/homes/fathom/install/cubpar/cgm-sha/lib  -R/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin   -L/homes/fathom/3rdparty/netcdf/netcdf-4.0.1/parallel/gcc/lib     -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -L/homes/fathom/install/cubpar/cgm-sha/lib  -L/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib  -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib  -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -o sploc_searching_perf sploc_searching_perf.o ../../../src/libMOAB.la ../../../tools/mbcoupler/libmbcoupler.la -lm
libtool: link: /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -O2 -DNDEBUG -o .libs/tree_searching_perf tree_searching_perf.o  -L/homes/fathom/3rdparty/netcdf/netcdf-4.0.1/parallel/gcc/lib -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -L/homes/fathom/install/cubpar/cgm-sha/lib -L/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin ../../../src/.libs/libMOAB.so ../../../tools/mbcoupler/.libs/libmbcoupler.so -lm -Wl,-rpath -Wl,/homes/fathom/install/cubpar/moab-sha/lib -Wl,-rpath -Wl,/homes/fathom/install/cubpar/cgm-sha/lib -Wl,-rpath -Wl,/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin
libtool: link: /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -O2 -DNDEBUG -o .libs/sploc_searching_perf sploc_searching_perf.o  -L/homes/fathom/3rdparty/netcdf/netcdf-4.0.1/parallel/gcc/lib -L/homes/fathom/3rdparty/zlib/zlib-1.2.4/gcc/lib -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -L/homes/fathom/install/cubpar/cgm-sha/lib -L/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin ../../../src/.libs/libMOAB.so ../../../tools/mbcoupler/.libs/libmbcoupler.so -lm -Wl,-rpath -Wl,/homes/fathom/install/cubpar/moab-sha/lib -Wl,-rpath -Wl,/homes/fathom/install/cubpar/cgm-sha/lib -Wl,-rpath -Wl,/homes/fathom/3rdparty/cubit/Cubit64/Cubit-12.2/bin
/homes/fathom/install/cubpar///moab-sha/lib/homeshomeslibiMesh.so.0//:fathomfathom//installinstall//cubparcubpar//moabmoab--shasha//liblib//libiMesh.so.0libiMesh.so.0::  undefinedundefined  referencereference  toto  `` undefined reference to `moab::ParallelComm::update_shared_mesh()'
moab::ParallelComm::update_shared_mesh()'
collect2: ld returned 1 exit status/
collect2: homes/fathom/install/cubpar/moabld returned 1 exit status-
sha/lib/libiMesh.so.0: undefined reference to `moab::ParallelComm::update_shared_mesh()'
collect2: ld returned 1 exit status
moab::ParallelComm::update_shared_mesh()'
collect2: ld returned 1 exit status
 ...make[5]: *** Waiting for unfinished jobs.... 


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