[MOAB-dev] buildbot failure in moab-occ-par: failed shell test

Thu Nov 1 09:39:12 CDT 2012

these should be mine, sorry about it. 
The one with parallel write test is harder to explain. It could be some conflicts with the fact that we are using now 
make -j4 check, to speed it up. ( parallel tests, we are also launching them with something like mpiexec -np 2 <test> ) 
Maybe there are some conflicts with that. 

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

| Fathom : moab-occ-par build #42

| Results: failed shell test

| Buildslave: gnep

| Revision: None Log Excerpt

| Making check in igeom

| make[3]: Entering directory
| `/disks/itaps-buildslave/moab-occ-par/build/itaps/igeom'

| make check-am

| make[4]: Entering directory
| `/disks/itaps-buildslave/moab-occ-par/build/itaps/igeom'

| make testgeom testSmoothGeom testSmooth2

| make[5]: Entering directory
| `/disks/itaps-buildslave/moab-occ-par/build/itaps/igeom'

| /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx
| -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src/parallel
| -I../../src -DSRCDIR=. -DMESHDIR=../../MeshFiles/unittest/iGeom
| -I../../src -I../../src -I.. -I./.. -I../../itaps/imesh
| -I../../itaps/imesh -DUNORDERED_MAP_NS=std::tr1
| -DHAVE_UNORDERED_MAP=tr1/unordered_map
| -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -pipe -pedantic
| -Wno-long-long -O2 -DNDEBUG -MT testgeom.o -MD -MP -MF
| .deps/testgeom.Tpo -c -o testgeom.o testgeom.cc

| /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx
| -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src/parallel
| -I../../src -DSRCDIR=. -DMESHDIR=../../MeshFiles/unittest/iGeom
| -I../../src -I../../src -I.. -I./.. -I../../itaps/imesh
| -I../../itaps/imesh -DUNORDERED_MAP_NS=std::tr1
| -DHAVE_UNORDERED_MAP=tr1/unordered_map
| -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -pipe -pedantic
| -Wno-long-long -O2 -DNDEBUG -MT testSmooth.o -MD -MP -MF
| .deps/testSmooth.Tpo -c -o testSmooth.o testSmooth.cc

| /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx
| -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src/parallel
| -I../../src -DSRCDIR=. -DMESHDIR=../../MeshFiles/unittest/iGeom
| -I../../src -I../../src -I.. -I./.. -I../../itaps/imesh
| -I../../itaps/imesh -DUNORDERED_MAP_NS=std::tr1
| -DHAVE_UNORDERED_MAP=tr1/unordered_map
| -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -pipe -pedantic
| -Wno-long-long -O2 -DNDEBUG -MT testSmooth2.o -MD -MP -MF
| .deps/testSmooth2.Tpo -c -o testSmooth2.o testSmooth2.cc

| mv -f .deps/testgeom.Tpo .deps/testgeom.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 -O2 -DNDEBUG
| -R/homes/fathom/install/occpar/cgm/lib
| -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/occpar/cgm/lib
| -L/homes/fathom/3rdparty/occ/OpenCASCADE6.5.3/gccGnep/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/3rdparty/zlib/zlib-1.2.4/gcc/lib
| -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -o testgeom
| testgeom.o libFBiGeomMOAB.la ../../itaps/imesh/libiMesh.la
| ../../src/libMOAB.la
| -L/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/lib
| -L/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/lib
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-linux-gnu/

| 4.4.3/../../../../lib -L/lib/../lib -L/usr/lib/../lib
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3/../../..
| -L/usr/lib/x86_64-linux-gnu -lmpichcxx -lmpich -lopa -lpthread -lrt
| -lstdc++ -lm

| mv -f .deps/testSmooth.Tpo .deps/testSmooth.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 -O2 -DNDEBUG
| -R/homes/fathom/install/occpar/cgm/lib
| -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/occpar/cgm/lib
| -L/homes/fathom/3rdparty/occ/OpenCASCADE6.5.3/gccGnep/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/3rdparty/zlib/zlib-1.2.4/gcc/lib
| -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -o
| testSmoothGeom testSmooth.o libFBiGeomMOAB.la
| ../../itaps/imesh/libiMesh.la ../../src/libMOAB.la
| -L/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/lib
| -L/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/lib
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-li

| nux-gnu/4.4.3/../../../../lib -L/lib/../lib -L/usr/lib/../lib
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3/../../..
| -L/usr/lib/x86_64-linux-gnu -lmpichcxx -lmpich -lopa -lpthread -lrt
| -lstdc++ -lm

| libtool: link:
| /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe
| -pedantic -Wno-long-long -O2 -DNDEBUG -o .libs/testgeom testgeom.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/occpar/cgm/lib
| -L/homes/fathom/3rdparty/occ/OpenCASCADE6.5.3/gccGnep/lib
| ./.libs/libFBiGeomMOAB.so ../../itaps/imesh/.libs/libiMesh.so
| ../../src/.libs/libMOAB.so
| -L/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/lib
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3/../../../../lib -L/lib/../lib
| -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3/../../..
| -L/usr/lib/x86_64-linux-gnu -lmpichcxx -lmpich -lopa -lpthread -lrt
| -lstdc++ -lm -Wl,-rpath -Wl,/homes/fathom/install/occpar/moab/lib
| -Wl,-rpath -Wl,/homes/fathom/install/occpar/cgm/lib

| mv -f .deps/testSmooth2.Tpo .deps/testSmooth2.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 -O2 -DNDEBUG
| -R/homes/fathom/install/occpar/cgm/lib
| -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/occpar/cgm/lib
| -L/homes/fathom/3rdparty/occ/OpenCASCADE6.5.3/gccGnep/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/3rdparty/zlib/zlib-1.2.4/gcc/lib
| -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -o
| testSmooth2 testSmooth2.o libFBiGeomMOAB.la
| ../../itaps/imesh/libiMesh.la ../../src/libMOAB.la
| -L/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/lib
| -L/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/lib
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3 -L/usr/lib/gcc/x86_64-linu

| x-gnu/4.4.3/../../../../lib -L/lib/../lib -L/usr/lib/../lib
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3/../../..
| -L/usr/lib/x86_64-linux-gnu -lmpichcxx -lmpich -lopa -lpthread -lrt
| -lstdc++ -lm

| libtool: link:
| /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe
| -pedantic -Wno-long-long -O2 -DNDEBUG -o .libs/testSmoothGeom
| testSmooth.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/occpar/cgm/lib
| -L/homes/fathom/3rdparty/occ/OpenCASCADE6.5.3/gccGnep/lib
| ./.libs/libFBiGeomMOAB.so ../../itaps/imesh/.libs/libiMesh.so
| ../../src/.libs/libMOAB.so
| -L/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/lib
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3/../../../../lib -L/lib/../lib
| -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3/../../..
| -L/usr/lib/x86_64-linux-gnu -lmpichcxx -lmpich -lopa -lpthread -lrt
| -lstdc++ -lm -Wl,-rpath -Wl,/homes/fathom/install/occpar/moab/lib
| -Wl,-rpath -Wl,/homes/fathom/install/occpar/cgm/lib

| libtool: link:
| /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe
| -pedantic -Wno-long-long -O2 -DNDEBUG -o .libs/testSmooth2
| testSmooth2.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/occpar/cgm/lib
| -L/homes/fathom/3rdparty/occ/OpenCASCADE6.5.3/gccGnep/lib
| ./.libs/libFBiGeomMOAB.so ../../itaps/imesh/.libs/libiMesh.so
| ../../src/.libs/libMOAB.so
| -L/home/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/lib
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3
| -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3/../../../../lib -L/lib/../lib
| -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3/../../..
| -L/usr/lib/x86_64-linux-gnu -lmpichcxx -lmpich -lopa -lpthread -lrt
| -lstdc++ -lm -Wl,-rpath -Wl,/homes/fathom/install/occpar/moab/lib
| -Wl,-rpath -Wl,/homes/fathom/install/occpar/cgm/lib

| ...make check-TESTS

| make[5]: Entering directory
| `/disks/itaps-buildslave/moab-occ-par/build/itaps/igeom'

| make[6]: Entering directory
| `/disks/itaps-buildslave/moab-occ-par/build/itaps/igeom'

| [0;32mPASS[m: testgeom

| [0;32mPASS[m: testSmoothGeom

| [0;32mPASS[m: testSmooth2

| [0;32m==================

| All 3 tests passed

| ==================

| [mmake[6]: Leaving directory
| `/disks/itaps-buildslave/moab-occ-par/build/itaps/igeom'

| ...make[3]: Entering directory
| `/disks/itaps-buildslave/moab-occ-par/build/itaps'

| make[3]: Nothing to be done for `check-am'.

| ...Making check in tools

| make[2]: Entering directory
| `/disks/itaps-buildslave/moab-occ-par/build/tools'

| Making check in .

| make[3]: Entering directory
| `/disks/itaps-buildslave/moab-occ-par/build/tools'

| make[3]: Nothing to be done for `check-am'.

| ...Making check in mbcoupler

| make[3]: Entering directory
| `/disks/itaps-buildslave/moab-occ-par/build/tools/mbcoupler'

| /bin/sh ../../libtool --tag=CXX --mode=link
| /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe
| -pedantic -Wno-long-long -O2 -DNDEBUG
| -R/homes/fathom/install/occpar/cgm/lib
| -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/occpar/cgm/lib
| -L/homes/fathom/3rdparty/occ/OpenCASCADE6.5.3/gccGnep/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/3rdparty/zlib/zlib-1.2.4/gcc/lib
| -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -o addfield
| addfield.o libmbcoupler.la -lm

| /bin/sh ../../libtool --tag=CXX --mode=link
| /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe
| -pedantic -Wno-long-long -O2 -DNDEBUG
| -R/homes/fathom/install/occpar/cgm/lib
| -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/occpar/cgm/lib
| -L/homes/fathom/3rdparty/occ/OpenCASCADE6.5.3/gccGnep/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/3rdparty/zlib/zlib-1.2.4/gcc/lib
| -L/homes/fathom/3rdparty/hdf5/hdf5-1.8.3/parallel/gcc/lib -o ssn_test
| ssn_test.o libmbcoupler.la -lm

| libtool: link:
| /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe
| -pedantic -Wno-long-long -O2 -DNDEBUG -o .libs/addfield addfield.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/occpar/cgm/lib
| -L/homes/fathom/3rdparty/occ/OpenCASCADE6.5.3/gccGnep/lib
| ./.libs/libmbcoupler.so -lm -Wl,-rpath
| -Wl,/homes/fathom/install/occpar/moab/lib -Wl,-rpath
| -Wl,/homes/fathom/install/occpar/cgm/lib

| libtool: link:
| /homes/fathom/3rdparty/mpich2/mpich2-1.2.1/gcc/bin/mpicxx -Wall -pipe
| -pedantic -Wno-long-long -O2 -DNDEBUG -o .libs/ssn_test ssn_test.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/occpar/cgm/lib
| -L/homes/fathom/3rdparty/occ/OpenCASCADE6.5.3/gccGnep/lib
| ./.libs/libmbcoupler.so -lm -Wl,-rpath
| -Wl,/homes/fathom/install/occpar/moab/lib -Wl,-rpath
| -Wl,/homes/fathom/install/occpar/cgm/lib

| ./.libs/libmbcoupler.so: undefined reference to `opt_alloc_2'

| ./.libs/libmbcoupler.so: undefined reference to `opt_free_2'

| ./.libs/libmbcoupler.so: undefined reference to `opt_findpt_2'

| collect2: ld returned 1 exit status

| ...make[3]: *** Waiting for unfinished jobs....

| ./.libs/libmbcoupler.so: undefined reference to `opt_alloc_2'

| ./.libs/libmbcoupler.so: undefined reference to `opt_free_2'

| ./.libs/libmbcoupler.so: undefined reference to `opt_findpt_2'

| collect2: ld returned 1 exit status

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