Hi Gilles, I wanted to explore which function is called, when I call MPI_Init in a C program, because this function should be called from a Java program as well. Unfortunately C programs break with a Bus Error once more for openmpi-dev-124-g91e9686 on Solaris. I assume that's the reason why I get no useful backtrace for my Java program.
tyr small_prog 117 mpicc -o init_finalize init_finalize.c tyr small_prog 118 /usr/local/gdb-7.6.1_64_gcc/bin/gdb mpiexec ... (gdb) run -np 1 init_finalize Starting program: /usr/local/openmpi-1.9.0_64_gcc/bin/mpiexec -np 1 init_finalize [Thread debugging using libthread_db enabled] [New Thread 1 (LWP 1)] [New LWP 2 ] [tyr:19240] *** Process received signal *** [tyr:19240] Signal: Bus Error (10) [tyr:19240] Signal code: Invalid address alignment (1) [tyr:19240] Failing at address: ffffffff7bd1c10c /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/libopen-pal.so.0.0.0:opal_backtrace_print+0x2c /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/libopen-pal.so.0.0.0:0xdcc04 /lib/sparcv9/libc.so.1:0xd8b98 /lib/sparcv9/libc.so.1:0xcc70c /lib/sparcv9/libc.so.1:0xcc918 /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/libopen-pal.so.0.0.0:opal_proc_set_name+0x1c [ Signal 10 (BUS)] /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/openmpi/mca_pmix_native.so:0x103e8 /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/openmpi/mca_ess_pmi.so:0x33dc /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/libopen-rte.so.0.0.0:orte_init+0x67c /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/libmpi.so.0.0.0:ompi_mpi_init+0x374 /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/libmpi.so.0.0.0:PMPI_Init+0x2a8 /home/fd1026/work/skripte/master/parallel/prog/mpi/small_prog/init_finalize:main+0x20 /home/fd1026/work/skripte/master/parallel/prog/mpi/small_prog/init_finalize:_start+0x7c [tyr:19240] *** End of error message *** -------------------------------------------------------------------------- mpiexec noticed that process rank 0 with PID 0 on node tyr exited on signal 10 (Bus Error). -------------------------------------------------------------------------- [LWP 2 exited] [New Thread 2 ] [Switching to Thread 1 (LWP 1)] sol_thread_fetch_registers: td_ta_map_id2thr: no thread can be found to satisfy query (gdb) bt #0 0xffffffff7f6173d0 in rtld_db_dlactivity () from /usr/lib/sparcv9/ld.so.1 #1 0xffffffff7f6175a8 in rd_event () from /usr/lib/sparcv9/ld.so.1 #2 0xffffffff7f618950 in lm_delete () from /usr/lib/sparcv9/ld.so.1 #3 0xffffffff7f6226bc in remove_so () from /usr/lib/sparcv9/ld.so.1 #4 0xffffffff7f624574 in remove_hdl () from /usr/lib/sparcv9/ld.so.1 #5 0xffffffff7f61d97c in dlclose_core () from /usr/lib/sparcv9/ld.so.1 #6 0xffffffff7f61d9d4 in dlclose_intn () from /usr/lib/sparcv9/ld.so.1 #7 0xffffffff7f61db0c in dlclose () from /usr/lib/sparcv9/ld.so.1 #8 0xffffffff7ec87f60 in vm_close (loader_data=0x0, module=0xffffffff7c901fe0) at ../../../openmpi-dev-124-g91e9686/opal/libltdl/loaders/dlopen.c:212 #9 0xffffffff7ec85534 in lt_dlclose (handle=0x100189b50) at ../../../openmpi-dev-124-g91e9686/opal/libltdl/ltdl.c:1982 #10 0xffffffff7ecaabd4 in ri_destructor (obj=0x1001893a0) at ../../../../openmpi-dev-124-g91e9686/opal/mca/base/mca_base_component_repository.c:382 #11 0xffffffff7eca9504 in opal_obj_run_destructors (object=0x1001893a0) at ../../../../openmpi-dev-124-g91e9686/opal/class/opal_object.h:446 #12 0xffffffff7ecaa474 in mca_base_component_repository_release ( component=0xffffffff7b1236f0 <mca_oob_tcp_component>) at ../../../../openmpi-dev-124-g91e9686/opal/mca/base/mca_base_component_repository.c:240 #13 0xffffffff7ecac774 in mca_base_component_unload ( component=0xffffffff7b1236f0 <mca_oob_tcp_component>, output_id=-1) at ../../../../openmpi-dev-124-g91e9686/opal/mca/base/mca_base_components_close.c:47 #14 0xffffffff7ecac808 in mca_base_component_close ( component=0xffffffff7b1236f0 <mca_oob_tcp_component>, output_id=-1) at ../../../../openmpi-dev-124-g91e9686/opal/mca/base/mca_base_components_close.c:60 #15 0xffffffff7ecac8dc in mca_base_components_close (output_id=-1, components=0xffffffff7f14ba58 <orte_oob_base_framework+80>, skip=0x0) at ../../../../openmpi-dev-124-g91e9686/opal/mca/base/mca_base_components_close.c:86 #16 0xffffffff7ecac844 in mca_base_framework_components_close ( framework=0xffffffff7f14ba08 <orte_oob_base_framework>, skip=0x0) at ../../../../openmpi-dev-124-g91e9686/opal/mca/base/mca_base_components_close.c:66 #17 0xffffffff7efcaf58 in orte_oob_base_close () at ../../../../openmpi-dev-124-g91e9686/orte/mca/oob/base/oob_base_frame.c:112 #18 0xffffffff7ecc136c in mca_base_framework_close ( framework=0xffffffff7f14ba08 <orte_oob_base_framework>) at ../../../../openmpi-dev-124-g91e9686/opal/mca/base/mca_base_framework.c:187 #19 0xffffffff7be07858 in rte_finalize () at ../../../../../openmpi-dev-124-g91e9686/orte/mca/ess/hnp/ess_hnp_module.c:857 #20 0xffffffff7ef338a4 in orte_finalize () at ../../openmpi-dev-124-g91e9686/orte/runtime/orte_finalize.c:66 #21 0x000000010000723c in orterun (argc=4, argv=0xffffffff7fffe0b8) at ../../../../openmpi-dev-124-g91e9686/orte/tools/orterun/orterun.c:1103 #22 0x0000000100003e80 in main (argc=4, argv=0xffffffff7fffe0b8) at ../../../../openmpi-dev-124-g91e9686/orte/tools/orterun/main.c:13 (gdb) Kind regards Siegmar > thank you very much for the quick tutorial. Unfortunately I still > can't get a backtrace. > > > You might need to configure with --enable-debug and add -g -O0 > > to your CFLAGS and LDFLAGS > > > > Then once you attach with gdb, you have to find the thread that is polling : > > thread 1 > > bt > > thread 2 > > bt > > and so on until you find the good thread > > If _dbg is a local variable, you need to select the right frame > > before you can change the value : > > get the frame number from bt (generally 1 under linux) > > f <frame number> > > set _dbg=0 > > > > I hope this helps > > "--enable-debug" is one of my default options. Now I used the > following command to configure Open MPI. I always start the > build process in an empty directory and I always remove > /usr/local/openmpi-1.9.0_64_gcc, before I install a new version. > > tyr openmpi-dev-124-g91e9686-SunOS.sparc.64_gcc 112 head config.log \ > | grep openmpi > $ ../openmpi-dev-124-g91e9686/configure > --prefix=/usr/local/openmpi-1.9.0_64_gcc > --libdir=/usr/local/openmpi-1.9.0_64_gcc/lib64 > --with-jdk-bindir=/usr/local/jdk1.8.0/bin > --with-jdk-headers=/usr/local/jdk1.8.0/include > JAVA_HOME=/usr/local/jdk1.8.0 > LDFLAGS=-m64 -g -O0 CC=gcc CXX=g++ FC=gfortran > CFLAGS=-m64 -D_REENTRANT -g -O0 > CXXFLAGS=-m64 FCFLAGS=-m64 CPP=cpp CXXCPP=cpp > CPPFLAGS=-D_REENTRANT CXXCPPFLAGS= > --enable-mpi-cxx --enable-cxx-exceptions --enable-mpi-java > --enable-heterogeneous --enable-mpi-thread-multiple > --with-threads=posix --with-hwloc=internal --without-verbs > --with-wrapper-cflags=-std=c11 -m64 --enable-debug > tyr openmpi-dev-124-g91e9686-SunOS.sparc.64_gcc 113 > > > "gbd" doesn't allow any backtrace for any thread. > > tyr java 124 /usr/local/gdb-7.6.1_64_gcc/bin/gdb > GNU gdb (GDB) 7.6.1 > ... > (gdb) attach 18876 > Attaching to process 18876 > [New process 18876] > Retry #1: > Retry #2: > Retry #3: > Retry #4: > 0x7eadcb04 in ?? () > (gdb) info threads > [New LWP 12] > [New LWP 11] > [New LWP 10] > [New LWP 9] > [New LWP 8] > [New LWP 7] > [New LWP 6] > [New LWP 5] > [New LWP 4] > [New LWP 3] > [New LWP 2] > Id Target Id Frame > 12 LWP 2 0x7eadc6b0 in ?? () > 11 LWP 3 0x7eadcbb8 in ?? () > 10 LWP 4 0x7eadcbb8 in ?? () > 9 LWP 5 0x7eadcbb8 in ?? () > 8 LWP 6 0x7eadcbb8 in ?? () > 7 LWP 7 0x7eadcbb8 in ?? () > 6 LWP 8 0x7ead8b0c in ?? () > 5 LWP 9 0x7eadcbb8 in ?? () > 4 LWP 10 0x7eadcbb8 in ?? () > 3 LWP 11 0x7eadcbb8 in ?? () > 2 LWP 12 0x7eadcbb8 in ?? () > * 1 LWP 1 0x7eadcb04 in ?? () > (gdb) thread 1 > [Switching to thread 1 (LWP 1)] > #0 0x7eadcb04 in ?? () > (gdb) bt > #0 0x7eadcb04 in ?? () > #1 0x7eaca12c in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 2 > [Switching to thread 2 (LWP 12)] > #0 0x7eadcbb8 in ?? () > (gdb) bt > #0 0x7eadcbb8 in ?? () > #1 0x7eac2638 in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 3 > [Switching to thread 3 (LWP 11)] > #0 0x7eadcbb8 in ?? () > (gdb) bt > #0 0x7eadcbb8 in ?? () > #1 0x7eac25a8 in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 4 > [Switching to thread 4 (LWP 10)] > #0 0x7eadcbb8 in ?? () > (gdb) bt > #0 0x7eadcbb8 in ?? () > #1 0x7eac2638 in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 5 > [Switching to thread 5 (LWP 9)] > #0 0x7eadcbb8 in ?? () > (gdb) bt > #0 0x7eadcbb8 in ?? () > #1 0x7eac2638 in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 6 > [Switching to thread 6 (LWP 8)] > #0 0x7ead8b0c in ?? () > (gdb) bt > #0 0x7ead8b0c in ?? () > #1 0x7eacbcb0 in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 7 > [Switching to thread 7 (LWP 7)] > #0 0x7eadcbb8 in ?? () > (gdb) bt > #0 0x7eadcbb8 in ?? () > #1 0x7eac25a8 in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 8 > [Switching to thread 8 (LWP 6)] > #0 0x7eadcbb8 in ?? () > (gdb) bt > #0 0x7eadcbb8 in ?? () > #1 0x7eac25a8 in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 9 > [Switching to thread 9 (LWP 5)] > #0 0x7eadcbb8 in ?? () > (gdb) bt > #0 0x7eadcbb8 in ?? () > #1 0x7eac2638 in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 10 > [Switching to thread 10 (LWP 4)] > #0 0x7eadcbb8 in ?? () > (gdb) bt > #0 0x7eadcbb8 in ?? () > #1 0x7eac25a8 in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 11 > [Switching to thread 11 (LWP 3)] > #0 0x7eadcbb8 in ?? () > (gdb) bt > #0 0x7eadcbb8 in ?? () > #1 0x7eac25a8 in ?? () > Backtrace stopped: previous frame identical to this frame (corrupt stack?) > (gdb) thread 12 > [Switching to thread 12 (LWP 2)] > #0 0x7eadc6b0 in ?? () > (gdb) > > > > I also tried to set _dbg in all available frames without success. > > (gdb) f 1 > #1 0x7eacb46c in ?? () > (gdb) set _dbg=0 > No symbol table is loaded. Use the "file" command. > (gdb) symbol-file /usr/local/openmpi-1.9.0_64_gcc/lib64/libmpi_java.so > Reading symbols from > /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/libmpi_java.so.0.0.0...done. > (gdb) f 1 > #1 0x7eacb46c in ?? () > (gdb) set _dbg=0 > No symbol "_dbg" in current context. > (gdb) f 2 > #0 0x00000000 in ?? () > (gdb) set _dbg=0 > No symbol "_dbg" in current context. > (gdb) > ... > > > With "list" I get source code from mpi_CartComm.c and not from mpi_MPI.c. > If a switch threads, "list" continues in the old file. > > (gdb) thread 1 > [Switching to thread 1 (LWP 1)] > #0 0x7eadcb04 in ?? () > (gdb) list 36 > 31 distributed under the License is distributed on an "AS IS" BASIS, > 32 WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or > implied. > 33 See the License for the specific language governing permissions > and > 34 limitations under the License. > 35 */ > 36 /* > 37 * File : mpi_CartComm.c > 38 * Headerfile : mpi_CartComm.h > 39 * Author : Sung-Hoon Ko, Xinying Li > 40 * Created : Thu Apr 9 12:22:15 1998 > (gdb) thread 2 > [Switching to thread 2 (LWP 12)] > #0 0x7eadcbb8 in ?? () > (gdb) list > 41 * Revision : $Revision: 1.6 $ > 42 * Updated : $Date: 2003/01/16 16:39:34 $ > 43 * Copyright: Northeast Parallel Architectures Center > 44 * at Syracuse University 1998 > 45 */ > 46 #include "ompi_config.h" > 47 > 48 #include <stdlib.h> > 49 #ifdef HAVE_TARGETCONDITIONALS_H > 50 #include <TargetConditionals.h> > (gdb) > > > Do you have any ideas, what's going wrong or if I must use a different > symbol table? > > > Kind regards > > Siegmar > > > > > > > > Gilles > > > > > > Siegmar Gross <siegmar.gr...@informatik.hs-fulda.de> wrote: > > >Hi Gilles, > > > > > >I changed _dbg to a static variable, so that it is visible in the > > >library, but unfortunately still not in the symbol table. > > > > > > > > >tyr java 419 nm /usr/local/openmpi-1.9.0_64_gcc/lib64/libmpi_java.so | > > >grep -i _dbg > > >[271] | 1249644| 4|OBJT |LOCL |0 |18 |_dbg.14258 > > >tyr java 420 /usr/local/gdb-7.6.1_64_gcc/bin/gdb > > >GNU gdb (GDB) 7.6.1 > > >... > > >(gdb) attach 13019 > > >Attaching to process 13019 > > >[New process 13019] > > >Retry #1: > > >Retry #2: > > >Retry #3: > > >Retry #4: > > >0x7eadcb04 in ?? () > > >(gdb) symbol-file /usr/local/openmpi-1.9.0_64_gcc/lib64/libmpi_java.so > > >Reading symbols from > /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/libmpi_java.so.0.0.0...done. > > >(gdb) set var _dbg.14258=0 > > >No symbol "_dbg" in current context. > > >(gdb) > > > > > > > > >Kind regards > > > > > >Siegmar > > > > > > > > > > > > > > >> unfortunately I didn't get anything useful. It's probably my fault, > > >> because I'm still not very familiar with gdb or any other debugger. > > >> I did the following things. > > >> > > >> > > >> 1st window: > > >> ----------- > > >> > > >> tyr java 174 setenv OMPI_ATTACH 1 > > >> tyr java 175 mpijavac InitFinalizeMain.java > > >> warning: [path] bad path element > > >> "/usr/local/openmpi-1.9.0_64_gcc/lib64/shmem.jar": > > >> no such file or directory > > >> 1 warning > > >> tyr java 176 mpiexec -np 1 java InitFinalizeMain > > >> > > >> > > >> > > >> 2nd window: > > >> ----------- > > >> > > >> tyr java 379 ps -aef | grep java > > >> noaccess 1345 1 0 May 22 ? 113:23 /usr/java/bin/java > > >> -server -Xmx128m > -XX:+UseParallelGC > > >-XX:ParallelGCThreads=4 > > >> fd1026 3661 10753 0 14:09:12 pts/14 0:00 mpiexec -np 1 java > > >> InitFinalizeMain > > >> fd1026 3677 13371 0 14:16:55 pts/2 0:00 grep java > > >> fd1026 3663 3661 0 14:09:12 pts/14 0:01 java -cp > > >/home/fd1026/work/skripte/master/parallel/prog/mpi/java:/usr/local/jun > > >> tyr java 380 /usr/local/gdb-7.6.1_64_gcc/bin/gdb > > >> GNU gdb (GDB) 7.6.1 > > >> ... > > >> (gdb) attach 3663 > > >> Attaching to process 3663 > > >> [New process 3663] > > >> Retry #1: > > >> Retry #2: > > >> Retry #3: > > >> Retry #4: > > >> 0x7eadcb04 in ?? () > > >> (gdb) symbol-file /usr/local/openmpi-1.9.0_64_gcc/lib64/libmpi_java.so > > >> Reading symbols from > /export2/prog/SunOS_sparc/openmpi-1.9.0_64_gcc/lib64/libmpi_java.so.0.0.0...done. > > >> (gdb) set var _dbg=0 > > >> No symbol "_dbg" in current context. > > >> (gdb) set var JNI_OnLoad::_dbg=0 > > >> No symbol "_dbg" in specified context. > > >> (gdb) set JNI_OnLoad::_dbg=0 > > >> No symbol "_dbg" in specified context. > > >> (gdb) info threads > > >> [New LWP 12] > > >> [New LWP 11] > > >> [New LWP 10] > > >> [New LWP 9] > > >> [New LWP 8] > > >> [New LWP 7] > > >> [New LWP 6] > > >> [New LWP 5] > > >> [New LWP 4] > > >> [New LWP 3] > > >> [New LWP 2] > > >> Id Target Id Frame > > >> 12 LWP 2 0x7eadc6b0 in ?? () > > >> 11 LWP 3 0x7eadcbb8 in ?? () > > >> 10 LWP 4 0x7eadcbb8 in ?? () > > >> 9 LWP 5 0x7eadcbb8 in ?? () > > >> 8 LWP 6 0x7eadcbb8 in ?? () > > >> 7 LWP 7 0x7eadcbb8 in ?? () > > >> 6 LWP 8 0x7ead8b0c in ?? () > > >> 5 LWP 9 0x7eadcbb8 in ?? () > > >> 4 LWP 10 0x7eadcbb8 in ?? () > > >> 3 LWP 11 0x7eadcbb8 in ?? () > > >> 2 LWP 12 0x7eadcbb8 in ?? () > > >> * 1 LWP 1 0x7eadcb04 in ?? () > > >> (gdb) > > >> > > >> > > >> > > >> It seems that "_dbg" is unknown and unavailable. > > >> > > >> tyr java 399 grep _dbg > > >> /export2/src/openmpi-1.9/openmpi-dev-124-g91e9686/ompi/mpi/java/c/* > > >> /export2/src/openmpi-1.9/openmpi-dev-124-g91e9686/ompi/mpi/java/c/mpi_MPI.c: > > >> volatile > int _dbg = 1; > > >> /export2/src/openmpi-1.9/openmpi-dev-124-g91e9686/ompi/mpi/java/c/mpi_MPI.c: > > >> while > (_dbg) poll(NULL, 0, 1); > > >> tyr java 400 nm /usr/local/openmpi-1.9.0_64_gcc/lib64/*.so | grep -i _dbg > > >> tyr java 401 nm /usr/local/openmpi-1.9.0_64_gcc/lib64/*.so | grep -i > > >> JNI_OnLoad > > >> [1057] | 139688| 444|FUNC |GLOB |0 |11 > > >> |JNI_OnLoad > > >> tyr java 402 > > >> > > >> > > >> > > >> How can I set _dbg to zero to continue mpiexec? I also tried to > > >> set a breakpoint for function JNI_OnLoad, but it seems, that the > > >> function isn't called before SIGSEGV. > > >> > > >> > > >> tyr java 177 unsetenv OMPI_ATTACH > > >> tyr java 178 /usr/local/gdb-7.6.1_64_gcc/bin/gdb mpiexec > > >> GNU gdb (GDB) 7.6.1 > > >> ... > > >> (gdb) b mpi_MPI.c:JNI_OnLoad > > >> No source file named mpi_MPI.c. > > >> Make breakpoint pending on future shared library load? (y or [n]) y > > >> > > >> Breakpoint 1 (mpi_MPI.c:JNI_OnLoad) pending. > > >> (gdb) run -np 1 java InitFinalizeMain > > >> Starting program: /usr/local/openmpi-1.9.0_64_gcc/bin/mpiexec -np 1 java > > >> InitFinalizeMain > > >> [Thread debugging using libthread_db enabled] > > >> [New Thread 1 (LWP 1)] > > >> [New LWP 2 ] > > >> # > > >> # A fatal error has been detected by the Java Runtime Environment: > > >> # > > >> # SIGSEGV (0xb) at pc=0xffffffff7ea3c7f0, pid=3518, tid=2 > > >> ... > > >> > > >> > > >> > > >> tyr java 381 cat InitFinalizeMain.java > > >> import mpi.*; > > >> > > >> public class InitFinalizeMain > > >> { > > >> public static void main (String args[]) throws MPIException > > >> { > > >> MPI.Init (args); > > >> System.out.print ("Hello!\n"); > > >> MPI.Finalize (); > > >> } > > >> } > > >> > > >> > > >> SIGSEGV happens in MPI.Init(args), because I can print a message > > >> before I call the method. > > >> > > >> tyr java 192 unsetenv OMPI_ATTACH > > >> tyr java 193 mpijavac InitFinalizeMain.java > > >> tyr java 194 mpiexec -np 1 java InitFinalizeMain > > >> Before MPI.Init() > > >> # > > >> # A fatal error has been detected by the Java Runtime Environment: > > >> # > > >> # SIGSEGV (0xb) at pc=0xffffffff7ea3c7f0, pid=3697, tid=2 > > >> ... > > >> > > >> > > >> > > >> Any ideas, how I can continue? I couldn't find a C function for > > >> MPI.Init() in a C file. Do you know, which function is called first, > > >> so that I can set a breakpoint? By the way, I get the same error > > >> for Solaris 10 x86_64. > > >> > > >> tyr java 388 ssh sunpc1 > > >> ... > > >> sunpc1 java 106 mpijavac InitFinalizeMain.java > > >> sunpc1 java 107 uname -a > > >> SunOS sunpc1 5.10 Generic_147441-21 i86pc i386 i86pc Solaris > > >> sunpc1 java 108 isainfo -k > > >> amd64 > > >> sunpc1 java 109 mpiexec -np 1 java InitFinalizeMain > > >> # > > >> # A fatal error has been detected by the Java Runtime Environment: > > >> # > > >> # SIGSEGV (0xb) at pc=0xfffffd7fff1d77f0, pid=20256, tid=2 > > >> > > >> > > >> Thank you very much for any help in advance. > > >> > > >> Kind regards > > >> > > >> Siegmar > > >> > > >> > > >> > > >> > thank you very much for your help. > > >> > > > >> > > how did you configure openmpi ? which java version did you use ? > > >> > > > > >> > > i just found a regression and you currently have to explicitly add > > >> > > CFLAGS=-D_REENTRANT CPPFLAGS=-D_REENTRANT > > >> > > to your configure command line > > >> > > > >> > I added "-D_REENTRANT" to my command. > > >> > > > >> > ../openmpi-dev-124-g91e9686/configure > > >> > --prefix=/usr/local/openmpi-1.9.0_64_gcc \ > > >> > --libdir=/usr/local/openmpi-1.9.0_64_gcc/lib64 \ > > >> > --with-jdk-bindir=/usr/local/jdk1.8.0/bin \ > > >> > --with-jdk-headers=/usr/local/jdk1.8.0/include \ > > >> > JAVA_HOME=/usr/local/jdk1.8.0 \ > > >> > LDFLAGS="-m64" CC="gcc" CXX="g++" FC="gfortran" \ > > >> > CFLAGS="-m64 -D_REENTRANT" CXXFLAGS="-m64" FCFLAGS="-m64" \ > > >> > CPP="cpp" CXXCPP="cpp" \ > > >> > CPPFLAGS="-D_REENTRANT" CXXCPPFLAGS="" \ > > >> > --enable-mpi-cxx \ > > >> > --enable-cxx-exceptions \ > > >> > --enable-mpi-java \ > > >> > --enable-heterogeneous \ > > >> > --enable-mpi-thread-multiple \ > > >> > --with-threads=posix \ > > >> > --with-hwloc=internal \ > > >> > --without-verbs \ > > >> > --with-wrapper-cflags="-std=c11 -m64" \ > > >> > --enable-debug \ > > >> > |& tee log.configure.$SYSTEM_ENV.$MACHINE_ENV.64_gcc > > >> > > > >> > I use Java 8. > > >> > > > >> > tyr openmpi-1.9 112 java -version > > >> > java version "1.8.0" > > >> > Java(TM) SE Runtime Environment (build 1.8.0-b132) > > >> > Java HotSpot(TM) 64-Bit Server VM (build 25.0-b70, mixed mode) > > >> > tyr openmpi-1.9 113 > > >> > > > >> > Unfortunately I still get a SIGSEGV with openmpi-dev-124-g91e9686. > > >> > I have applied your patch and will try to debug my small Java > > >> > program tomorrow or next week and then let you know the result. > > >> > > >> _______________________________________________ > > >> users mailing list > > >> us...@open-mpi.org > > >> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users > > >> Link to this post: > > >> http://www.open-mpi.org/community/lists/users/2014/10/25581.php > > > > > >_______________________________________________ > > >users mailing list > > >us...@open-mpi.org > > >Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users > > >Link to this post: > > >http://www.open-mpi.org/community/lists/users/2014/10/25582.php > > > > _______________________________________________ > users mailing list > us...@open-mpi.org > Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users > Link to this post: > http://www.open-mpi.org/community/lists/users/2014/10/25584.php