[Darshan-users] Error Make - Darshan 2.2.6 - Error: symbol

[Kevin Harms]

  I'm not sure what the issue is. Can you give the output of mpicc -show? Also, if you don't plan to use shared libraries, you can disable building them at configure time with '--disable-ld-preload'.

kevin

On Jun 9, 2013, at 9:56 AM, Sandra Mendez <sandra.mendez at caos.uab.es> wrote:

>  Hello,
> 
> I have configured Darshan with the following command:
> 
> ./configure --prefix=$HOME/darshan-2.2.6/build  --with-mem-align=8 --with-log-path=$HOME/darshan-2.2.6/darshan-logs --with-jobid-env=PBS_JOBID CC=$HOME/mpich2-1.5/build-pvfs2/bin/mpicc &>01_script-configure-darshan.sh.log
> 
> But, when I make Darshan I have the following errors:
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I ../ -I . -I./../ -g -O2  -D_LARGEFILE64_SOURCE  -c lib/darshan-posix.c -o lib/darshan-posix.o
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I ../ -I . -I./../ -g -O2  -D_LARGEFILE64_SOURCE  -c lib/lookup3.c -o lib/lookup3.o
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I ../ -I . -I./../ -g -O2  -D_LARGEFILE64_SOURCE  -c lib/lookup8.c -o lib/lookup8.o
> 
> ar rcs lib/libdarshan-posix.a lib/darshan-posix.o lib/lookup3.o lib/lookup8.o
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I ../ -I . -I./../ -g -O2  -D_LARGEFILE64_SOURCE  -c lib/darshan-mpi-io.c -o lib/darshan-mpi-io.o
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I ../ -I . -I./../ -g -O2  -D_LARGEFILE64_SOURCE  -c lib/darshan-mpi-init-finalize.c -o lib/darshan-mpi-init-finalize.o
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I ../ -I . -I./../ -g -O2  -D_LARGEFILE64_SOURCE  -c lib/darshan-pnetcdf.c -o lib/darshan-pnetcdf.o
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I ../ -I . -I./../ -g -O2  -D_LARGEFILE64_SOURCE  -c lib/darshan-hdf5.c -o lib/darshan-hdf5.o
> 
> ar rcs lib/libdarshan-mpi-io.a lib/darshan-mpi-io.o lib/darshan-mpi-init-finalize.o lib/darshan-pnetcdf.o lib/darshan-hdf5.o
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I. -I./../ -g -O2  -D_LARGEFILE64_SOURCE -shared -fpic -DPIC -DDARSHAN_PRELOAD -c lib/darshan-mpi-io.c -o lib/darshan-mpi-io.po
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I. -I./../ -g -O2  -D_LARGEFILE64_SOURCE -shared -fpic -DPIC -DDARSHAN_PRELOAD -c lib/darshan-mpi-init-finalize.c -o lib/darshan-mpi-init-finalize.po
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I. -I./../ -g -O2  -D_LARGEFILE64_SOURCE -shared -fpic -DPIC -DDARSHAN_PRELOAD -c lib/darshan-pnetcdf.c -o lib/darshan-pnetcdf.po
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I. -I./../ -g -O2  -D_LARGEFILE64_SOURCE -shared -fpic -DPIC -DDARSHAN_PRELOAD -c lib/darshan-hdf5.c -o lib/darshan-hdf5.po
> 
> /home/sandra/mpich2-1.5/build-pvfs2/bin/mpicc -DDARSHAN_CONFIG_H=\"darshan-runtime-config.h\" -I . -I. -I./../ -g -O2  -D_LARGEFILE64_SOURCE -shared -fpic -DPIC -DDARSHAN_PRELOAD -c lib/darshan-posix.c -o lib/darshan-posix.po
> 
> /tmp/ccwsfNVH.s: Assembler messages:
> 
> /tmp/ccwsfNVH.s:1758: Error: symbol `lseek64' is already defined
> 
> /tmp/ccwsfNVH.s:2067: Error: symbol `__fxstat64' is already defined
> 
> /tmp/ccwsfNVH.s:2344: Error: symbol `mmap64' is already defined
> 
> /tmp/ccwsfNVH.s:5846: Error: symbol `pwrite64' is already defined
> 
> /tmp/ccwsfNVH.s:6496: Error: symbol `pread64' is already defined
> 
> /tmp/ccwsfNVH.s:7233: Error: symbol `__lxstat64' is already defined
> 
> /tmp/ccwsfNVH.s:7438: Error: symbol `__xstat64' is already defined
> 
> /tmp/ccwsfNVH.s:7891: Error: symbol `fopen64' is already defined
> 
> /tmp/ccwsfNVH.s:8373: Error: symbol `creat64' is already defined
> 
> /tmp/ccwsfNVH.s:8891: Error: symbol `open64' is already defined
> 
> make: *** [lib/darshan-posix.po] Error 1
> 
> Somebody, Can help me?
> Thanks in advance.
> Sandra.- 
>  
>  
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> Darshan-users at lists.mcs.anl.gov
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