[mpich-discuss] Problem with gdb
Burlen Loring
burlen.loring at kitware.com
Tue Jul 29 08:44:30 CDT 2008
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
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