<font size=2 face="sans-serif">Hi,</font>
<br><font size=2 face="sans-serif">When I use LD_PRELOAD to get an application
instrumented with Darshan at run time, a SEGMENTATION FAULT raises. </font>
<br><font size=2 face="sans-serif">Also, the behaviour is the same when
simply running mpicc to get the version - and the generated coredump displays
the same stack - which seems to point the MPI wrappers as being the potential
suspect.</font>
<br>
<br><font size=2 face="sans-serif"># which mpicc</font>
<br><font size=2 face="sans-serif">/home_nfs/papaureg/workspace/openmpi-1.6.2/current_AE2__2/x86_64_bullxlinux6.1.1/bin/mpicc</font>
<br><font size=2 face="sans-serif"># mpicc --showme:version</font>
<br><font size=2 face="sans-serif">Erreur de segmentation (core dumped)</font>
<br><font size=2 face="sans-serif"># gdb mpicc core.14109</font>
<br><font size=2 face="sans-serif">GNU gdb (GDB) bullx Linux (7.2-50.bl6.Bull.1.20120306)</font>
<br><font size=2 face="sans-serif">Copyright (C) 2010 Free Software Foundation,
Inc.</font>
<br><font size=2 face="sans-serif">License GPLv3+: GNU GPL version 3 or
later <</font><a href=http://gnu.org/licenses/gpl.html><font size=2 face="sans-serif">http://gnu.org/licenses/gpl.html</font></a><font size=2 face="sans-serif">></font>
<br><font size=2 face="sans-serif">This is free software: you are free
to change and redistribute it.</font>
<br><font size=2 face="sans-serif">Reading symbols from /home_nfs/papaureg/workspace/openmpi-1.6.2/current_AE2__2/x86_64_bullxlinux6.1.1/bin/mpicc...done.</font>
<br><font size=2 face="sans-serif">[New Thread 14109]</font>
<br><font size=2 face="sans-serif">Missing separate debuginfo for /home_nfs/botallam/install/darshan.4/lib/libdarshan.so</font>
<br><font size=2 face="sans-serif">....</font>
<br><font size=2 face="sans-serif">Reading symbols from /home_nfs/papaureg/workspace/openmpi-1.6.2//current_AE2__2/x86_64_bullxlinux6.1.1/lib/libmpi.so.1...done.</font>
<br><font size=2 face="sans-serif">Loaded symbols for /home_nfs/papaureg/workspace/openmpi-1.6.2//current_AE2__2/x86_64_bullxlinux6.1.1/lib/libmpi.so.1</font>
<br><font size=2 face="sans-serif">Core was generated by `/home_nfs/papaureg/workspace/openmpi-1.6.2/current_AE2__2/x86_64_bullxlinux6.1.'.</font>
<br><font size=2 face="sans-serif">Program terminated with signal 11, Segmentation
fault.</font>
<br><font size=2 face="sans-serif">#0 0x00000036b7879446 in calloc
() from /lib64/libc.so.6</font>
<br><font size=2 face="sans-serif">Missing separate debuginfos, use: debuginfo-install
glibc-2.12-1.47.bl6_2.9.x86_64 libgcc-4.4.5-6.bl6.x86_64 numactl-2.0.3-9.bl6.x86_64
zlib-1.2.3-25.bl6.x86_64</font>
<br><font size=2 face="sans-serif">(gdb) where</font>
<br><font size=2 face="sans-serif">#0 0x00000036b7879446 in calloc
() from /lib64/libc.so.6</font>
<br><font size=2 face="sans-serif">#1 0x00000036b7c01310 in _dlerror_run
() from /lib64/libdl.so.2</font>
<br><font size=2 face="sans-serif">#2 0x00000036b7c0107a in dlsym
() from /lib64/libdl.so.2</font>
<br><font size=2 face="sans-serif">#3 0x00007f50f98c3487 in __xstat
(vers=1, path=0x7f50f966ffac "/dev/ummunotify", buf=0x7fff6b6f08c0)
at lib/darshan-posix.c:711</font>
<br><font size=2 face="sans-serif">#4 0x00007f50f9661a64 in opal_memory_linux_malloc_init_hook
() at hooks.c:756</font>
<br><font size=2 face="sans-serif">#5 0x00000036b7875b63 in ptmalloc_init
() from /lib64/libc.so.6</font>
<br><font size=2 face="sans-serif">#6 0x00000036b7879987 in malloc_hook_ini
() from /lib64/libc.so.6</font>
<br><font size=2 face="sans-serif">#7 0x00000036b78a6da1 in __alloc_dir
() from /lib64/libc.so.6</font>
<br><font size=2 face="sans-serif">#8 0x00000036b94053cd in ?? ()
from /usr/lib64/libnuma.so.1</font>
<br><font size=2 face="sans-serif">#9 0x00000036b740e515 in _dl_init_internal
() from /lib64/ld-linux-x86-64.so.2</font>
<br><font size=2 face="sans-serif">#10 0x00000036b7400b3a in _dl_start_user
() from /lib64/ld-linux-x86-64.so.2</font>
<br><font size=2 face="sans-serif">#11 0x0000000000000002 in ?? ()</font>
<br><font size=2 face="sans-serif">#12 0x00007fff6b6f1a43 in ?? ()</font>
<br><font size=2 face="sans-serif">#13 0x00007fff6b6f1a9e in ?? ()</font>
<br><font size=2 face="sans-serif">#14 0x0000000000000000 in ?? ()</font>
<br><font size=2 face="sans-serif">(gdb)</font>
<br>
<br><font size=2 face="sans-serif">Can someone help me to understand the
issue?</font>
<br><font size=2 face="sans-serif">Thanks,</font>
<br><font size=2 face="sans-serif">Myriam.</font>
<br>
<br>
<br>
<br><font size=2 face="sans-serif">HERE IS the environment:</font>
<br>
<br><font size=2 face="sans-serif">LD_PRELOAD=/home_nfs/botallam/install/darshan.4/lib/libdarshan.so</font>
<br>
<br><font size=2 face="sans-serif">The Darshan library was configured and
generated with environment variable OMPI_CC=gcc</font>
<br><font size=2 face="sans-serif">using mpicc: Open MPI 1.6.2 (Language:
C)</font>
<br>
<br><font size=2 face="sans-serif"># which mpicc</font>
<br><font size=2 face="sans-serif">/home_nfs/papaureg/workspace/openmpi-1.6.2/current_AE2__2/x86_64_bullxlinux6.1.1/bin/mpicc</font>
<br><font size=2 face="sans-serif"># CC=mpicc CFLAGS=-g ./configure --prefix=/home_nfs/botallam/install/darshan.4
--with-mem-align=16 --with-log-path-by-env=DARSHAN_LOGPATH --with-jobid-env=SLURM_JOBID</font>
<br>
<br><font size=2 face="sans-serif"># ldd /home_nfs/botallam/install/darshan.4/lib/libdarshan.so</font>
<br><font size=2 face="sans-serif"> linux-vdso.so.1
=> (0x00007fffe9e93000)</font>
<br><font size=2 face="sans-serif"> libdl.so.2
=> /lib64/libdl.so.2 (0x00007f8a753bd000)</font>
<br><font size=2 face="sans-serif"> libpthread.so.0
=> /lib64/libpthread.so.0 (0x00007f8a751a0000)</font>
<br><font size=2 face="sans-serif"> librt.so.1
=> /lib64/librt.so.1 (0x00007f8a74f98000)</font>
<br><font size=2 face="sans-serif"> libz.so.1
=> /lib64/libz.so.1 (0x00007f8a74d83000)</font>
<br><font size=2 face="sans-serif"> libmpi.so.1
=> /home_nfs/papaureg/workspace/openmpi-1.6.2//current_AE2__2/x86_64_bullxlinux6.1.1/lib/libmpi.so.1
(0x00007f8a74967000)</font>
<br><font size=2 face="sans-serif"> libm.so.6
=> /lib64/libm.so.6 (0x00007f8a746e3000)</font>
<br><font size=2 face="sans-serif"> libnuma.so.1
=> /usr/lib64/libnuma.so.1 (0x00007f8a744db000)</font>
<br><font size=2 face="sans-serif"> libnsl.so.1
=> /lib64/libnsl.so.1 (0x00007f8a742c1000)</font>
<br><font size=2 face="sans-serif"> libutil.so.1
=> /lib64/libutil.so.1 (0x00007f8a740be000)</font>
<br><font size=2 face="sans-serif"> libc.so.6
=> /lib64/libc.so.6 (0x00007f8a73d2e000)</font>
<br><font size=2 face="sans-serif"> /lib64/ld-linux-x86-64.so.2
(0x00000036b7400000)</font>
<br><font size=2 face="sans-serif"> libimf.so
=> /opt/intel/composer_xe_2013.1.117/compiler/lib/intel64/libimf.so
(0x00007f8a73871000)</font>
<br><font size=2 face="sans-serif"> libsvml.so
=> /opt/intel/composer_xe_2013.1.117/compiler/lib/intel64/libsvml.so
(0x00007f8a72fa3000)</font>
<br><font size=2 face="sans-serif"> libgcc_s.so.1
=> /lib64/libgcc_s.so.1 (0x00007f8a72d8d000)</font>
<br><font size=2 face="sans-serif"> libintlc.so.5
=> /opt/intel/composer_xe_2013.1.117/compiler/lib/intel64/libintlc.so.5
(0x00007f8a72b3e000)</font>
<br><font size=2 face="sans-serif">#</font>
<br><font size=2 face="sans-serif">#</font>
<br><font size=2 face="sans-serif"># nm /home_nfs/botallam/install/darshan.4/lib/libdarshan.so|grep
mpi</font>
<br><font size=2 face="sans-serif">0000000000227020 B __real_ncmpi_close</font>
<br><font size=2 face="sans-serif">0000000000227010 B __real_ncmpi_create</font>
<br><font size=2 face="sans-serif">0000000000227018 B __real_ncmpi_open</font>
<br><font size=2 face="sans-serif">00000000000048cc T darshan_mpi_initialize</font>
<br><font size=2 face="sans-serif">00000000000179d2 T ncmpi_close</font>
<br><font size=2 face="sans-serif">000000000001763c T ncmpi_create</font>
<br><font size=2 face="sans-serif">0000000000017807 T ncmpi_open</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_byte</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_char</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_comm_world</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_double</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_info_null</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_int</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_long</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_op_land</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_op_lor</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_op_max</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_op_null</font>
<br><font size=2 face="sans-serif">
U ompi_mpi_op_sum</font>
<br><font size=2 face="sans-serif">0000000000016444 T resolve_mpi_symbols</font>
<br><font size=2 face="sans-serif">#</font>
<br>
<br>
<br>
<br>