[mpich-discuss] Problem with gdb
Burlen Loring
burlen.loring at kitware.com
Tue Jul 29 10:32:54 CDT 2008
Anthony Chan wrote:
> configuring mpich2 with --enable-g=meminit,dbg should get rid some (if not all)
> of valgrind messages.
>
indeed. thanks!
but mpiexec -gdb still hangs :(
Burlen
> A.Chan
> ----- "Burlen Loring" <burlen.loring at kitware.com> wrote:
>
>
>> Hi all,
>>
>> Marcelo Tomim wrote:
>>
>>> I have been trying to debug a program, but it freezes every time I
>>>
>> try to run
>>
>>> it in debug mode.
>>> This is what I type:
>>> mpiexec -gdb -n 3 ./my_program
>>>
>>> Then it does not return the command line and I have to kill it.
>>>
>>>
>> I can confirm this. The same thing recently started happening to me. I
>>
>> guessed it was related to a recent kernel/system library upgrades.
>>
>> Linux tycho 2.6.24-19-generic #1 SMP Fri Jul 11 23:41:49 UTC 2008 i686
>>
>> GNU/Linux
>>
>> Also seemingly coincident with recent system upgrades, when I run
>> codes
>> through valgrind I see a lot of complaints about using uninitialized
>> memory. Below is a simple program and it's valgrind output. Notice,
>> that
>> there is a lot of lines like:
>>
>> Syscall param writev(vector[...]) points to uninitialised byte(s)
>>
>> These seemed to show up about the same time that -gdb option stopped
>> working. I think it has to do with system library change and not mpich
>>
>> but I can't be sure. I am using my own source install of mpich 2 and I
>>
>> have rebuilt since the upgrades but it didn't help.
>>
>> I'd certainly like to get the -gdb option back, and the memory issues
>>
>> cleaned up as well.
>>
>> Thanks
>> Burlen
>>
>> // begin of mpivg.cpp
>> #include <mpi.h>
>> #include <iostream>
>>
>> int main(int argc, char **argv)
>> {
>> MPI_Init(&argc,&argv);
>> MPI_Barrier(MPI_COMM_WORLD);
>> MPI_Finalize();
>> return 0;
>> }
>> // end of mpivg.cpp
>>
>> tycho:~/ext/kitware_cvs/Work/Burlen/testing$mpiexec -n 2 valgrind
>> ./mpivg
>> ==2031== Memcheck, a memory error detector.
>> ==2031== Copyright (C) 2002-2007, and GNU GPL'd, by Julian Seward et
>> al.
>> ==2031== Using LibVEX rev 1804, a library for dynamic binary
>> translation.
>> ==2031== Copyright (C) 2004-2007, and GNU GPL'd, by OpenWorks LLP.
>> ==2031== Using valgrind-3.3.0-Debian, a dynamic binary instrumentation
>>
>> framework.
>> ==2031== Copyright (C) 2000-2007, and GNU GPL'd, by Julian Seward et
>> al.
>> ==2031== For more details, rerun with: -v
>> ==2030== Memcheck, a memory error detector.
>> ==2030== Copyright (C) 2002-2007, and GNU GPL'd, by Julian Seward et
>> al.
>> ==2030== Using LibVEX rev 1804, a library for dynamic binary
>> translation.
>> ==2030== Copyright (C) 2004-2007, and GNU GPL'd, by OpenWorks LLP.
>> ==2030== Using valgrind-3.3.0-Debian, a dynamic binary instrumentation
>>
>> framework.
>> ==2030== Copyright (C) 2000-2007, and GNU GPL'd, by Julian Seward et
>> al.
>> ==2030== For more details, rerun with: -v
>> ==2030==
>> ==2031==
>> ==2030== Syscall param writev(vector[...]) points to uninitialised
>> byte(s)
>> ==2030== at 0x40007F2: (within /lib/ld-2.7.so)
>> ==2030== by 0x4130FBC: MPIDU_Sock_wait (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)==2031== Syscall param
>> writev(vector[...]) points to uninitialised byte(s)
>> ==2031== at 0x40007F2: (within /lib/ld-2.7.so)
>> ==2031== by 0x4130FBC: MPIDU_Sock_wait (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40ABE2B: MPIDI_CH3I_Progress (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40EA978: MPIC_Wait (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40EAD71: MPIC_Sendrecv (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40A089D: MPIR_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==
>> ==2030== by 0x40ABE2B: MPIDI_CH3I_Progress (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40EA978: MPIC_Wait (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40EAD71: MPIC_Sendrecv (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40A089D: MPIR_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40A0E4A: PMPI_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x804891B: main (in
>> /home/burlen/ext/kitware_cvs/Work/Burlen/testing/mpivg)
>> ==2030== Address 0x4457fa8 is 32 bytes inside a block of size 72
>> alloc'd
>> ==2030== at 0x4022AB8: malloc (vg_replace_malloc.c:207)
>> ==2030== by 0x40AE6F5: MPIDI_CH3I_Connection_alloc (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40AE97E: MPIDI_CH3I_Sock_connect (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40AEBB7: MPIDI_CH3I_VC_post_sockconnect (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40AAB0C: MPIDI_CH3I_VC_post_connect (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40A9472: MPIDI_CH3_iSend (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40F9CC5: MPID_Isend (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40EAD39: MPIC_Sendrecv (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40A089D: MPIR_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40A0E4A: PMPI_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x804891B: main (in
>> /home/burlen/ext/kitware_cvs/Work/Burlen/testing/mpivg)
>> 2031== by 0x40A0E4A: PMPI_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x804891B: main (in
>> /home/burlen/ext/kitware_cvs/Work/Burlen/testing/mpivg)
>> ==2031== Address 0x4457fa8 is 32 bytes inside a block of size 72
>> alloc'd
>> ==2031== at 0x4022AB8: malloc (vg_replace_malloc.c:207)
>> ==2031== by 0x40AE6F5: MPIDI_CH3I_Connection_alloc (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40AE97E: MPIDI_CH3I_Sock_connect (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40AEBB7: MPIDI_CH3I_VC_post_sockconnect (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40AAB0C: MPIDI_CH3I_VC_post_connect (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40A9472: MPIDI_CH3_iSend (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40F9CC5: MPID_Isend (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40EAD39: MPIC_Sendrecv (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40A089D: MPIR_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40A0E4A: PMPI_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x804891B: main (in
>> /home/burlen/ext/kitware_cvs/Work/Burlen/testing/mpivg)
>> ==2030==
>> ==2030== Syscall param write(buf) points to uninitialised byte(s)
>> ==2030== at 0x40007F2: (within /lib/ld-2.7.so)
>> ==2030== by 0x40A950D: MPIDI_CH3_iSend (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40F9CC5: MPID_Isend (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40EAD39: MPIC_Sendrecv (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40A089D: MPIR_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40A0E4A: PMPI_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40F82DF: MPID_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40D8FD4: PMPI_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x8048920: main (in
>> /home/burlen/ext/kitware_cvs/Work/Burlen/testing/mpivg)
>> ==2030== Address 0xbec94fdc is on thread 1's stack
>> ==2031==
>> ==2031== Syscall param write(buf) points to uninitialised byte(s)
>> ==2031== at 0x40007F2: (within /lib/ld-2.7.so)
>> ==2031== by 0x40A950D: MPIDI_CH3_iSend (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40F9CC5: MPID_Isend (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40EAD39: MPIC_Sendrecv (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40A089D: MPIR_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40A0E4A: PMPI_Barrier (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40F82DF: MPID_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40D8FD4: PMPI_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x8048920: main (in
>> /home/burlen/ext/kitware_cvs/Work/Burlen/testing/mpivg)
>> ==2031== Address 0xbeb6afdc is on thread 1's stack
>> ==2030==
>> ==2030== Syscall param write(buf) points to uninitialised byte(s)
>> ==2030== at 0x40007F2: (within /lib/ld-2.7.so)
>> ==2030== by 0x40AA244: MPIDI_CH3_iStartMsg (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40B0F86: MPIDI_CH3U_VC_SendClose (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x4101B7F: MPIDI_PG_Close_VCs (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40F8451: MPID_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40D8FD4: PMPI_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x8048920: main (in
>> /home/burlen/ext/kitware_cvs/Work/Burlen/testing/mpivg)
>> ==2030== Address 0xbec95084 is on thread 1's stack
>> ==2031==
>> ==2031== Syscall param write(buf) points to uninitialised byte(s)
>> ==2031== at 0x40007F2: (within /lib/ld-2.7.so)
>> ==2031== by 0x40AA244: MPIDI_CH3_iStartMsg (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40B0F86: MPIDI_CH3U_VC_SendClose (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x4101B7F: MPIDI_PG_Close_VCs (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40F8451: MPID_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40D8FD4: PMPI_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x8048920: main (in
>> /home/burlen/ext/kitware_cvs/Work/Burlen/testing/mpivg)
>> ==2031== Address 0xbeb6b084 is on thread 1's stack
>> ==2030==
>> ==2030== Syscall param write(buf) points to uninitialised byte(s)
>> ==2030== at 0x40007F2: (within /lib/ld-2.7.so)
>> ==2030== by 0x40AA244: MPIDI_CH3_iStartMsg (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40B1181: MPIDI_CH3_PktHandler_Close (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40AB8E0: MPIDI_CH3I_Progress_handle_sock_event (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40ABDE5: MPIDI_CH3I_Progress (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40B0E1C: MPIDI_CH3U_VC_WaitForClose (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40F8456: MPID_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x40D8FD4: PMPI_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2030== by 0x8048920: main (in
>> /home/burlen/ext/kitware_cvs/Work/Burlen/testing/mpivg)
>> ==2030== Address 0xbec94fa4 is on thread 1's stack
>> ==2031==
>> ==2031== Syscall param write(buf) points to uninitialised byte(s)
>> ==2031== at 0x40007F2: (within /lib/ld-2.7.so)
>> ==2031== by 0x40AA244: MPIDI_CH3_iStartMsg (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40B1181: MPIDI_CH3_PktHandler_Close (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40AB8E0: MPIDI_CH3I_Progress_handle_sock_event (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40ABDE5: MPIDI_CH3I_Progress (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40B0E1C: MPIDI_CH3U_VC_WaitForClose (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40F8456: MPID_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x40D8FD4: PMPI_Finalize (in
>> /opt/mpich2-1.0.7/lib/libmpich.so.1.1)
>> ==2031== by 0x8048920: main (in
>> /home/burlen/ext/kitware_cvs/Work/Burlen/testing/mpivg)
>> ==2031== Address 0xbeb6afa4 is on thread 1's stack
>> ==2031==
>> ==2031== ERROR SUMMARY: 5 errors from 4 contexts (suppressed: 27 from
>> 1)
>> ==2031== malloc/free: in use at exit: 0 bytes in 0 blocks.
>> ==2031== malloc/free: 55 allocs, 55 frees, 35,225 bytes allocated.
>> ==2031== For counts of detected errors, rerun with: -v
>> ==2031== All heap blocks were freed -- no leaks are possible.
>> ==2030==
>> ==2030== ERROR SUMMARY: 5 errors from 4 contexts (suppressed: 27 from
>> 1)
>> ==2030== malloc/free: in use at exit: 0 bytes in 0 blocks.
>> ==2030== malloc/free: 55 allocs, 55 frees, 35,225 bytes allocated.
>> ==2030== For counts of detected errors, rerun with: -v
>> ==2030== All heap blocks were freed -- no leaks are possible.
>>
>>
>> --
>> Burlen Loring
>> Kitware, Inc.
>> R&D Engineer
>> 28 Corporate Drive
>> Clifton Park, NY 12065-8662
>> Phone: 518-371-3971 x137
>>
>
>
--
Burlen Loring
Kitware, Inc.
R&D Engineer
28 Corporate Drive
Clifton Park, NY 12065-8662
Phone: 518-371-3971 x137
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